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<h3>
Andreas Tille pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/libmaus2">Debian Med / libmaus2</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e">ab8fa5e2</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-03-27T08:37:59+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.0.713+ds</pre>
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<h4>8 changed files:</h4>
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<li class="file-stats">
<a href="#00fe7828d56d7a3ee4030d6cea057cf13f50e70c">
ChangeLog
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<li class="file-stats">
<a href="#87db583be5c13c1f7b3c958b10e03d67b6a2ca06">
configure.ac
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<li class="file-stats">
<a href="#67e794015a01b8816bd16290e5f8538236da8245">
src/Makefile.am
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<li class="file-stats">
<a href="#cba616b4aafab7206a181f459f04fa028ba20c16">
src/libmaus2/LibMausConfig.hpp.in
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<li class="file-stats">
<a href="#d8ab60bfa7d4d09ce24c9ee93d1088e7d5a80c7e">
src/libmaus2/bambam/Scram.c
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<li class="file-stats">
<a href="#7be65568294af3ddc5b09c163358c768729a1fef">
src/libmaus2/bambam/parallel/BlockMergeControl.hpp
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<a href="#3d84b0cdec70662e7696af8f4cf98dd7c3c9a27e">
src/libmaus2/bambam/parallel/ScramCramEncoding.hpp
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<li class="file-stats">
<a href="#483e822d79d86c3d9c93071b3d8138f13679b6a6">
src/libmaus2/geometry/RangeSet.hpp
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<h4>Changes:</h4>
<li id="00fe7828d56d7a3ee4030d6cea057cf13f50e70c">
<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#00fe7828d56d7a3ee4030d6cea057cf13f50e70c"><strong>ChangeLog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libmaus2 (2.0.713-1) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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<td class="diff-line-num new new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Add new interface for setting CRAM compression profile in parallel CRAM encoding</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Clean up RangeSet interface</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> -- German Tischler-Höhle <germant@miltenyibiotec.de> Wed, 25 Mar 2020 17:38:36 +0100</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">libmaus2 (2.0.712-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> * Add experimental archive mode for cram writing</span>
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<li id="87db583be5c13c1f7b3c958b10e03d67b6a2ca06">
<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#87db583be5c13c1f7b3c958b10e03d67b6a2ca06"><strong>configure.ac</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">AC_INIT(libmaus2,2.0.71<span class="idiff left right">2</span>,[germant@miltnyibiotec.de],[libmaus2],[https://github.com/gt1/libmaus2])</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">LIBRARY_VERSION=2:71<span class="idiff left right">2</span>:0</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">AC_INIT(libmaus2,2.0.71<span class="idiff left right">3</span>,[germant@miltnyibiotec.de],[libmaus2],[https://github.com/gt1/libmaus2])</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">LIBRARY_VERSION=2:71<span class="idiff left right">3</span>:0</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">AC_MSG_NOTICE([Configuring for source in directory ${srcdir}])</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">AC_CANONICAL_SYSTEM</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">AC_CANONICAL_HOST</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2327" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2327,6 +2327,8 @@ IOLIBHAVENEWCRAMINTERFACE=no</td>
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<pre style="margin: 0;"> <span id="LC2327" class="line" lang="plaintext">LIBMAUS2_HAVE_IO_NEW_CRAM_INTERFACE=</span>
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<pre style="margin: 0;"> <span id="LC2328" class="line" lang="plaintext">LIBMAUS2_HAVE_IO_LIB_CRAM_ENCODER_GET_FD=</span>
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<pre style="margin: 0;"> <span id="LC2329" class="line" lang="plaintext">LIBMAUS2_HAVE_IO_LIB_BAMBAM_H=</span>
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<pre style="margin: 0;">+<span id="LC2330" class="line" lang="plaintext">LIBMAUS2_HAVE_IO_LIB_CRAM_SET_OPTION=</span>
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2331
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<pre style="margin: 0;">+<span id="LC2331" class="line" lang="plaintext">LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE=</span>
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2330
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2332
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<pre style="margin: 0;"> <span id="LC2332" class="line" lang="plaintext"></span>
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2331
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2333
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<pre style="margin: 0;"> <span id="LC2333" class="line" lang="plaintext">AC_ARG_WITH([io_lib],</span>
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2332
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2334
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<pre style="margin: 0;"> <span id="LC2334" class="line" lang="plaintext"> [AS_HELP_STRING([--with-io_lib@<:@=PATH@:>@], [support for io_lib library @<:@default=no@:>@])],</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2399" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2401" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2399,8 +2401,16 @@ if test "${have_dynamic_loading}" = "yes" -a "${getpagesize}" = "yes" -a "${posi</td>
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2399
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2401
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<pre style="margin: 0;"> <span id="LC2401" class="line" lang="plaintext"> AC_CHECK_FUNC(cram_enque_compression_block,cram_enque_compression_block=yes,cram_enque_compression_block=no)</span>
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2400
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2402
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<pre style="margin: 0;"> <span id="LC2402" class="line" lang="plaintext"> AC_CHECK_FUNC(cram_process_work_package,cram_process_work_package=yes,cram_process_work_package=no)</span>
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2401
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2403
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<pre style="margin: 0;"> <span id="LC2403" class="line" lang="plaintext"> AC_CHECK_FUNC(cram_encoder_get_fd,cram_encoder_get_fd=yes,cram_encoder_get_fd=no)</span>
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2404
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<pre style="margin: 0;">+<span id="LC2404" class="line" lang="plaintext"> AC_CHECK_FUNC(cram_set_option,cram_set_option=yes,cram_set_option=no)</span>
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2405
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<pre style="margin: 0;">+<span id="LC2405" class="line" lang="plaintext"> AC_CHECK_DECL([CRAM_OPT_PROFILE], [LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE=yes], [LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE=no], [#include <io_lib/scram.h>])</span>
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2402
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2406
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<pre style="margin: 0;"> <span id="LC2406" class="line" lang="plaintext"> AC_LANG_POP</span>
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2403
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2407
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<pre style="margin: 0;"> <span id="LC2407" class="line" lang="plaintext"></span>
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2408
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<pre style="margin: 0;">+<span id="LC2408" class="line" lang="plaintext"> if test "${LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE}" = "yes" ; then</span>
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2409
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<pre style="margin: 0;">+<span id="LC2409" class="line" lang="plaintext"> LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE="#define LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE"</span>
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2410
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<pre style="margin: 0;">+<span id="LC2410" class="line" lang="plaintext"> else</span>
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2411
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<pre style="margin: 0;">+<span id="LC2411" class="line" lang="plaintext"> LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE=</span>
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2412
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<pre style="margin: 0;">+<span id="LC2412" class="line" lang="plaintext"> fi</span>
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2413
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<pre style="margin: 0;">+<span id="LC2413" class="line" lang="plaintext"></span>
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2404
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2414
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<pre style="margin: 0;"> <span id="LC2414" class="line" lang="plaintext"> if test "${io_lib_scram_h}" != "yes" ; then</span>
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2405
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2415
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<pre style="margin: 0;"> <span id="LC2415" class="line" lang="plaintext"> AC_MSG_ERROR([--with-io_lib is set to ${with_io_lib}, but io_lib headers are not available])</span>
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2406
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2416
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<pre style="margin: 0;"> <span id="LC2416" class="line" lang="plaintext"> fi</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2603" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2613" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2603,6 +2613,9 @@ if test "${have_dynamic_loading}" = "yes" -a "${getpagesize}" = "yes" -a "${posi</td>
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2603
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2613
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<pre style="margin: 0;"> <span id="LC2613" class="line" lang="plaintext"> if test $io_lib_cram_bambam_h = "yes" ; then</span>
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2604
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2614
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<pre style="margin: 0;"> <span id="LC2614" class="line" lang="plaintext"> LIBMAUS2_HAVE_IO_LIB_BAMBAM_H="#define LIBMAUS2_HAVE_IO_LIB_BAMBAM_H"</span>
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2605
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2615
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<pre style="margin: 0;"> <span id="LC2615" class="line" lang="plaintext"> fi</span>
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2616
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<pre style="margin: 0;">+<span id="LC2616" class="line" lang="plaintext"> if test $cram_set_option = "yes" ; then</span>
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2617
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<pre style="margin: 0;">+<span id="LC2617" class="line" lang="plaintext"> LIBMAUS2_HAVE_IO_LIB_CRAM_SET_OPTION="#define LIBMAUS2_HAVE_IO_LIB_CRAM_SET_OPTION"</span>
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2618
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<pre style="margin: 0;">+<span id="LC2618" class="line" lang="plaintext"> fi</span>
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2606
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2619
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<pre style="margin: 0;"> <span id="LC2619" class="line" lang="plaintext"></span>
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2607
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2620
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<pre style="margin: 0;"> <span id="LC2620" class="line" lang="plaintext"> CPPFLAGS="${CPPFLAGSSAVE}"</span>
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2608
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2621
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<pre style="margin: 0;"> <span id="LC2621" class="line" lang="plaintext"> LDFLAGS="${LDFLAGSSAVE}"</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="3292" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="3305" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3292,4 +3305,6 @@ AC_SUBST([LIBMAUS2_HAVE_MMAP_HUGEPAGES])</td>
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3292
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3305
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<pre style="margin: 0;"> <span id="LC3305" class="line" lang="plaintext">AC_SUBST([LIBMAUS2_HAVE_SYS_PRCTL_H])</span>
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3293
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3306
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<pre style="margin: 0;"> <span id="LC3306" class="line" lang="plaintext">AC_SUBST([LIBMAUS2_HAVE_IO_LIB_CRAM_ENCODER_GET_FD])</span>
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3294
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3307
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<pre style="margin: 0;"> <span id="LC3307" class="line" lang="plaintext">AC_SUBST([LIBMAUS2_HAVE_IO_LIB_BAMBAM_H])</span>
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3308
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<pre style="margin: 0;">+<span id="LC3308" class="line" lang="plaintext">AC_SUBST([LIBMAUS2_HAVE_IO_LIB_CRAM_SET_OPTION])</span>
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3309
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<pre style="margin: 0;">+<span id="LC3309" class="line" lang="plaintext">AC_SUBST([LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE])</span>
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3295
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3310
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<pre style="margin: 0;"> <span id="LC3310" class="line" lang="plaintext">AC_OUTPUT(Makefile src/Makefile libmaus2.pc libmaus2irods.pc ubuntu.sh src/libmaus2/LibMausConfig.hpp test/Makefile)</span></pre>
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<li id="67e794015a01b8816bd16290e5f8538236da8245">
<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#67e794015a01b8816bd16290e5f8538236da8245"><strong>src/Makefile.am</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2502,13 +2502,13 @@ testgnutls_LDFLAGS = ${AM_LDFLAGS} @GNUTLSLIBS@</td>
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2502
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2502
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<pre style="margin: 0;"> <span id="LC2502" class="line" lang="make"><span class="nv" style="color: #008080;">testgnutls_CXXFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CXXFLAGS}</span> @WARNCXXFLAGS@ </span>
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2503
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2503
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<pre style="margin: 0;"> <span id="LC2503" class="line" lang="make"></span>
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2504
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2504
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<pre style="margin: 0;"> <span id="LC2504" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamsorting_SOURCES</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">test</span>/testparallelbamsorting.cpp</span>
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2505
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<pre style="margin: 0;">-<span id="LC2505" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamsorting_CPPFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CPPFLAGS}</span> @SNAPPYCPPFLAGS@<span class="idiff left right"> @IOLIBCPPFLAGS@</span></span>
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2505
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<pre style="margin: 0;">+<span id="LC2505" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamsorting_CPPFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CPPFLAGS}</span> @SNAPPYCPPFLAGS@</span>
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2506
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2506
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<pre style="margin: 0;"> <span id="LC2506" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamsorting_LDFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_LDFLAGS}</span> @SNAPPYLDFLAGS@</span>
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2507
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2507
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<pre style="margin: 0;"> <span id="LC2507" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamsorting_LDADD</span> <span class="o" style="font-weight: 600;">=</span> libmaus2.la libmaus2_simd_align_128.la libmaus2_simd_align_256.la @SNAPPYLIBS@ <span class="nv" style="color: #008080;">${DLLIB}</span></span>
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2508
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2508
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<pre style="margin: 0;"> <span id="LC2508" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamsorting_CXXFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CXXFLAGS}</span> @WARNCXXFLAGS@ </span>
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2509
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2509
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<pre style="margin: 0;"> <span id="LC2509" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC2510" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamvalidation_SOURCES</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">test</span>/testparallelbamvalidation.cpp</span>
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<pre style="margin: 0;">-<span id="LC2511" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamvalidation_CPPFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CPPFLAGS}</span> @SNAPPYCPPFLAGS@<span class="idiff left right"> @IOLIBCPPFLAGS@</span></span>
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<pre style="margin: 0;">+<span id="LC2511" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamvalidation_CPPFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CPPFLAGS}</span> @SNAPPYCPPFLAGS@</span>
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<pre style="margin: 0;"> <span id="LC2512" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamvalidation_LDFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_LDFLAGS}</span> @SNAPPYLDFLAGS@</span>
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<pre style="margin: 0;"> <span id="LC2513" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamvalidation_LDADD</span> <span class="o" style="font-weight: 600;">=</span> libmaus2.la libmaus2_simd_align_128.la libmaus2_simd_align_256.la @SNAPPYLIBS@ <span class="nv" style="color: #008080;">${DLLIB}</span></span>
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<pre style="margin: 0;"> <span id="LC2514" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamvalidation_CXXFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CXXFLAGS}</span> @WARNCXXFLAGS@ </span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2542,11 +2542,11 @@ testmd5_CXXFLAGS = ${AM_CXXFLAGS} @WARNCXXFLAGS@</td>
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<pre style="margin: 0;"> <span id="LC2542" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC2543" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamrewrite_SOURCES</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">test</span>/testparallelbamrewrite.cpp</span>
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<pre style="margin: 0;"> <span id="LC2544" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamrewrite_LDADD</span> <span class="o" style="font-weight: 600;">=</span> libmaus2.la libmaus2_simd_align_128.la libmaus2_simd_align_256.la</span>
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<pre style="margin: 0;">-<span id="LC2545" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamrewrite_CXXFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CXXFLAGS}</span> @WARNCXXFLAGS@<span class="idiff left right"> @IOLIBCPPFLAGS@</span></span>
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<pre style="margin: 0;">+<span id="LC2545" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamrewrite_CXXFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CXXFLAGS}</span> @WARNCXXFLAGS@</span>
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<pre style="margin: 0;"> <span id="LC2546" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC2547" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamblocksort_SOURCES</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">test</span>/testparallelbamblocksort.cpp</span>
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<pre style="margin: 0;"> <span id="LC2548" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamblocksort_LDADD</span> <span class="o" style="font-weight: 600;">=</span> libmaus2.la libmaus2_simd_align_128.la libmaus2_simd_align_256.la @SNAPPYLIBS@ <span class="nv" style="color: #008080;">${DLLIB}</span> @GMPLIBS@</span>
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<pre style="margin: 0;">-<span id="LC2549" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamblocksort_CPPFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CPPFLAGS}</span> <span class="nv" style="color: #008080;">${CPPFLAGS}</span> @SNAPPYCPPFLAGS@<span class="idiff left right"> @IOLIBCPPFLAGS@</span></span>
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<pre style="margin: 0;">+<span id="LC2549" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamblocksort_CPPFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CPPFLAGS}</span> <span class="nv" style="color: #008080;">${CPPFLAGS}</span> @SNAPPYCPPFLAGS@</span>
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<pre style="margin: 0;"> <span id="LC2550" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamblocksort_CXXFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_CXXFLAGS}</span> @WARNCXXFLAGS@</span>
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<pre style="margin: 0;"> <span id="LC2551" class="line" lang="make"><span class="nv" style="color: #008080;">testparallelbamblocksort_LDFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nv" style="color: #008080;">${AM_LDFLAGS}</span> <span class="nv" style="color: #008080;">${LDFLAGS}</span> @SNAPPYLDFLAGS@ @GMPLDFLAGS@</span>
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<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#cba616b4aafab7206a181f459f04fa028ba20c16"><strong>src/libmaus2/LibMausConfig.hpp.in</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -113,6 +113,8 @@</td>
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<pre style="margin: 0;"> <span id="LC113" class="line" lang="plaintext">@LIBMAUS2_HAVE_IO_NEW_CRAM_INTERFACE@</span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="plaintext">@LIBMAUS2_HAVE_IO_LIB_CRAM_ENCODER_GET_FD@</span>
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115
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="plaintext">@LIBMAUS2_HAVE_IO_LIB_BAMBAM_H@</span>
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="plaintext">@LIBMAUS2_HAVE_IO_LIB_CRAM_SET_OPTION@</span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="plaintext">@LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE@</span>
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="plaintext">/**</span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="plaintext"> * flag constants</span>
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<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#d8ab60bfa7d4d09ce24c9ee93d1088e7d5a80c7e"><strong>src/libmaus2/bambam/Scram.c</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -781,31 +781,18 @@ void scram_cram_deallocate_encoder(void *context)</td>
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<pre style="margin: 0;"> <span id="LC781" class="line" lang="c"> <span class="n" style="color: #333;">cram_deallocate_encoder</span><span class="p">(</span><span class="n" style="color: #333;">context</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC782" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC783" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC784" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#if defined(LIBMAUS2_HAVE_IO_LIB_CRAM_ENCODER_GET_FD)</span></span>
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785
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<pre style="margin: 0;">-<span id="LC785" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">scram_cram_set_<span class="idiff left">archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">context</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC784" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#if defined(LIBMAUS2_HAVE_IO_LIB_CRAM_ENCODER_GET_FD)<span class="idiff left right"> && defined(LIBMAUS2_HAVE_IO_LIB_CRAM_SET_OPTION) && defined(LIBMAUS2_IO_LIB_HAVE_CRAM_OPT_PROFILE)</span></span></span>
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785
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<pre style="margin: 0;">+<span id="LC785" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">scram_cram_set_<span class="idiff left">cram_profile</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">context</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">char</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">profile</span></span><span class="p">)</span></span>
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786
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<pre style="margin: 0;"> <span id="LC786" class="line" lang="c"><span class="p">{</span></span>
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787
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<pre style="margin: 0;"> <span id="LC787" class="line" lang="c"> <span class="n" style="color: #333;">cram_fd</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">fd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cram_encoder_get_fd</span><span class="p">(</span><span class="n" style="color: #333;">context</span><span class="p">);</span></span>
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788
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<pre style="margin: 0;"> <span id="LC788" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">r</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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789
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789
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<pre style="margin: 0;"> <span id="LC789" class="line" lang="c"></span>
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790
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<pre style="margin: 0;">-<span id="LC790" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"[V] enabling cram archive mode</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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791
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<pre style="margin: 0;">-<span id="LC791" class="line" lang="c"></span>
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792
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<pre style="margin: 0;">-<span id="LC792" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">use_bz2</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC793" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">use_lzma</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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794
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<pre style="margin: 0;">-<span id="LC794" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">s_opt</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">100000</span><span class="p">;</span></span>
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795
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<td class="diff-line-num new_line old" data-linenumber="790" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC795" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">bases_per_slice</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s_opt</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">500</span><span class="p">;</span></span>
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796
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<pre style="margin: 0;">-<span id="LC796" class="line" lang="c"></span>
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797
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<pre style="margin: 0;">-<span id="LC797" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">use_bz2</span> <span class="p">)</span></span>
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798
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<pre style="margin: 0;">-<span id="LC798" class="line" lang="c"> <span class="n" style="color: #333;">cram_set_option</span><span class="p">(</span><span class="n" style="color: #333;">fd</span><span class="p">,</span> <span class="n" style="color: #333;">CRAM_OPT_USE_BZIP2</span><span class="p">,</span> <span class="n" style="color: #333;">use_bz2</span><span class="p">);</span></span>
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799
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<pre style="margin: 0;">-<span id="LC799" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">use_lzma</span> <span class="p">)</span></span>
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800
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<pre style="margin: 0;">-<span id="LC800" class="line" lang="c"> <span class="n" style="color: #333;">cram_set_option</span><span class="p">(</span><span class="n" style="color: #333;">fd</span><span class="p">,</span> <span class="n" style="color: #333;">CRAM_OPT_USE_LZMA</span><span class="p">,</span> <span class="n" style="color: #333;">use_lzma</span><span class="p">);</span></span>
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801
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<pre style="margin: 0;">-<span id="LC801" class="line" lang="c"></span>
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802
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<pre style="margin: 0;">-<span id="LC802" class="line" lang="c"> <span class="n" style="color: #333;">cram_set_option</span><span class="p">(</span><span class="n" style="color: #333;">fd</span><span class="p">,</span> <span class="n" style="color: #333;">CRAM_OPT_SEQS_PER_SLICE</span><span class="p">,</span> <span class="n" style="color: #333;">s_opt</span><span class="p">);</span></span>
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803
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<pre style="margin: 0;">-<span id="LC803" class="line" lang="c"> <span class="n" style="color: #333;">cram_set_option</span><span class="p">(</span><span class="n" style="color: #333;">fd</span><span class="p">,</span> <span class="n" style="color: #333;">CRAM_OPT_BASES_PER_SLICE</span><span class="p">,</span> <span class="n" style="color: #333;">bases_per_slice</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC790" class="line" lang="c"> <span class="n" style="color: #333;">r</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cram_set_option</span><span class="p">(</span><span class="n" style="color: #333;">fd</span><span class="p">,</span> <span class="n" style="color: #333;">CRAM_OPT_PROFILE</span><span class="p">,</span> <span class="n" style="color: #333;">profile</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC791" class="line" lang="c"></span>
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805
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<pre style="margin: 0;"> <span id="LC792" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">r</span><span class="p">;</span></span>
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806
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<pre style="margin: 0;"> <span id="LC793" class="line" lang="c"><span class="p">}</span></span>
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807
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<pre style="margin: 0;"> <span id="LC794" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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808
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<pre style="margin: 0;">-<span id="LC808" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">scram_cram_set_<span class="idiff left">archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">context</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC795" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">scram_cram_set_<span class="idiff left">cram_profile</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">context</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">char</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">profile</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC796" class="line" lang="c"><span class="p">{</span></span>
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810
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797
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<pre style="margin: 0;"> <span id="LC797" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">r</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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811
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798
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<pre style="margin: 0;"> <span id="LC798" class="line" lang="c"></span>
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<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#7be65568294af3ddc5b09c163358c768729a1fef"><strong>src/libmaus2/bambam/parallel/BlockMergeControl.hpp</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -331,7 +331,7 @@ namespace libmaus2</td>
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<pre style="margin: 0;"> <span id="LC331" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC332" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">timing</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">RealTimeClock</span> <span class="n" style="color: #333;">rtc</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC333" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC334" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">bool</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">cram_archive_mod</span>e</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="cpp"> <span class="n" style="color: #333;"><span class="idiff left">std</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">string</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">cramprofil</span>e</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC335" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC336" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">enqueHeader</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC337" class="line" lang="cpp"> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="371" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -371,8 +371,8 @@ namespace libmaus2</td>
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<pre style="margin: 0;"> <span id="LC371" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>
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<pre style="margin: 0;"> <span id="LC372" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC373" class="line" lang="cpp"> <span class="p">}</span></span>
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374
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<pre style="margin: 0;">-<span id="LC374" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">cram<span class="idiff left right">_archive_mode</span></span> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC375" class="line" lang="cpp"> <span class="n" style="color: #333;">cram_set_<span class="idiff left">archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">cramsupport</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">context</span></span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC374" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">cram<span class="idiff left">profile</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">size</span></span><span class="p"><span class="idiff right">()</span></span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC375" class="line" lang="cpp"> <span class="n" style="color: #333;">cram_set_<span class="idiff left">profile</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">cramsupport</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">context</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff right">cramprofile</span></span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC376" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC377" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC378" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">case</span> <span class="n" style="color: #333;">output_format_bam</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -434,9 +434,9 @@ namespace libmaus2</td>
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434
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<pre style="margin: 0;"> <span id="LC434" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">PcramEncoder</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cram_allocate_encoder</span><span class="p">(</span><span class="n" style="color: #333;">userdata</span><span class="p">,</span><span class="n" style="color: #333;">header</span><span class="p">,</span><span class="n" style="color: #333;">headerlength</span><span class="p">,</span><span class="n" style="color: #333;">writefunc</span><span class="p">);</span></span>
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435
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<pre style="margin: 0;"> <span id="LC435" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC436" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC437" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">cram_set_<span class="idiff left">archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="n" style="color: #333;"><span class="idiff right">userdata</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC437" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">cram_set_<span class="idiff left">profile</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="n" style="color: #333;"><span class="idiff">userdata</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">std</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">string</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">&</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">cramprofile</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC438" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC439" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">PcramEncoder</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cram_set_<span class="idiff left">archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">userdata</span></span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC439" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">PcramEncoder</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cram_set_<span class="idiff left">profile</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">userdata</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff right">cramprofile</span></span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC440" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC441" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC442" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">cram_deallocate_encoder</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">context</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -539,24 +539,8 @@ namespace libmaus2</td>
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<pre style="margin: 0;"> <span id="LC539" class="line" lang="cpp"> <span class="n" style="color: #333;">cramsupport</span><span class="p">(</span><span class="n" style="color: #333;">STP</span><span class="p">.</span><span class="n" style="color: #333;">getNumThreads</span><span class="p">()),</span></span>
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="cpp"> <span class="n" style="color: #333;">bamindex</span><span class="p">(</span><span class="n" style="color: #333;">rbamindex</span><span class="p">),</span></span>
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<pre style="margin: 0;"> <span id="LC541" class="line" lang="cpp"> <span class="n" style="color: #333;">bamnumericalindex</span><span class="p">(</span><span class="n" style="color: #333;">rbamnumericalindex</span><span class="p">),</span></span>
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<pre style="margin: 0;">-<span id="LC542" class="line" lang="cpp"> <span class="n" style="color: #333;">cram<span class="idiff left">_archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="nb" style="color: #0086b3;"><span class="idiff right">fals</span>e</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC542" class="line" lang="cpp"> <span class="n" style="color: #333;">cram<span class="idiff left">profile</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">crammod</span>e</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC543" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC544" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">crammode</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">()</span> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC545" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC546" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">crammode</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"archive"</span> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC547" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC548" class="line" lang="cpp"> <span class="n" style="color: #333;">cram_archive_mode</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC549" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC550" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span></span>
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<pre style="margin: 0;">-<span id="LC551" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC552" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">exception</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">LibMausException</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC553" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[E] unknown CRAM compression mode "</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">crammode</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC554" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>
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<pre style="margin: 0;">-<span id="LC555" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC556" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC558" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC559" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bambam</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">GenericInputControlStreamInfo</span><span class="o" style="font-weight: 600;">>::</span><span class="n" style="color: #333;">size_type</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">in</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC545" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC546" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bambam</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">GenericInputSingleData</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr_type</span> <span class="n" style="color: #333;">tptr</span><span class="p">(</span></span>
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<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#3d84b0cdec70662e7696af8f4cf98dd7c3c9a27e"><strong>src/libmaus2/bambam/parallel/ScramCramEncoding.hpp</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -45,8 +45,8 @@ namespace libmaus2</td>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">enque_func_t</span><span class="o" style="font-weight: 600;">>::</span><span class="n" style="color: #333;">unique_ptr_type</span> <span class="n" style="color: #333;">Penque_func</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">dispatch_func_t</span><span class="p">)(</span><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">dispatch_func_t</span><span class="o" style="font-weight: 600;">>::</span><span class="n" style="color: #333;">unique_ptr_type</span> <span class="n" style="color: #333;">Pdispatch_func</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">set_<span class="idiff left">archive_mode_func_t</span></span><span class="p"><span class="idiff">)(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff right">void</span></span> <span class="o" style="font-weight: 600;">*</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">set_<span class="idiff left">archive_mode_func_t</span></span><span class="o" style="font-weight: 600;"><span class="idiff">>::</span></span><span class="n" style="color: #333;"><span class="idiff">unique_ptr_type</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">Pset_archive_mod</span>e_func</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">set_<span class="idiff left">cram_profile_func_t</span></span><span class="p"><span class="idiff">)(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">char</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff right">const</span></span> <span class="o" style="font-weight: 600;">*</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">set_<span class="idiff left">cram_profile_func_t</span></span><span class="o" style="font-weight: 600;"><span class="idiff">>::</span></span><span class="n" style="color: #333;"><span class="idiff">unique_ptr_type</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">Pset_cram_profil</span>e_func</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="cpp"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="cpp"> <span class="n" style="color: #333;">ScramCramEncoding</span><span class="p">()</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -89,10 +89,11 @@ namespace libmaus2</td>
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89
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">dispatch_func_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="n" style="color: #333;">scramlib</span><span class="p">,</span><span class="s" style="color: #d14;">"scram_cram_process_work_package"</span><span class="p">)</span></span>
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90
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="cpp"> <span class="p">);</span></span>
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91
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="cpp"> <span class="n" style="color: #333;">Pdispatch_func</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">UNIQUE_PTR_MOVE</span><span class="p">(</span><span class="n" style="color: #333;">Tdispatch_func</span><span class="p">);</span></span>
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92
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">set_archive_mode_func_t</span><span class="o" style="font-weight: 600;">>::</span><span class="n" style="color: #333;">unique_ptr_type</span> <span class="n" style="color: #333;">Tset_archive_mode_func</span><span class="p">(</span></span>
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93
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">dispatch_func_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="n" style="color: #333;">scramlib</span><span class="p">,</span><span class="s" style="color: #d14;">"scram_cram_set_archive_mode"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="cpp"></span>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">set_cram_profile_func_t</span><span class="o" style="font-weight: 600;">>::</span><span class="n" style="color: #333;">unique_ptr_type</span> <span class="n" style="color: #333;">Tset_cram_profile_func</span><span class="p">(</span></span>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DynamicLibraryFunction</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">set_cram_profile_func_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="n" style="color: #333;">scramlib</span><span class="p">,</span><span class="s" style="color: #d14;">"scram_cram_set_cram_profile"</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="cpp"> <span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="cpp"> <span class="n" style="color: #333;">Pset_<span class="idiff left">archive_mode_func</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">UNIQUE_PTR_MOVE</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">Tset_archive_mod</span>e_func</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="cpp"> <span class="n" style="color: #333;">Pset_<span class="idiff left">cram_profile_func</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">UNIQUE_PTR_MOVE</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">Tset_cram_profil</span>e_func</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="cpp"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="cpp"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -108,13 +109,13 @@ namespace libmaus2</td>
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<pre style="margin: 0;"> <span id="LC109" class="line" lang="cpp"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">cram_set_<span class="idiff left">archive_mode</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">context</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">cram_set_<span class="idiff left">profile</span></span><span class="p"><span class="idiff">(</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">context</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">std</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">string</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">&</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">profile</span></span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC113" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="cpp"> <span class="cp" style="color: #999; font-weight: 600;">#if defined(LIBMAUS2_HAVE_DL_FUNCS)</span></span>
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">Pset_<span class="idiff left">archive_mode_func</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff">func</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">context</span></span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">Pset_<span class="idiff left">cram_profile_func</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff">func</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">context</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff">profile</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">c_str</span></span><span class="p"><span class="idiff right">()</span>);</span></span>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="cpp"> <span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;"> <span id="LC117" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">exception</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">LibMausException</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"ScramCramEncoding::<span class="idiff left right">cram_set_archive_mod</span>e: no support for new CRAM encoding interface"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"ScramCramEncoding::<span class="idiff left right">scram_cram_set_cram_profil</span>e: no support for new CRAM encoding interface"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="cpp"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<li id="483e822d79d86c3d9c93071b3d8138f13679b6a6">
<a href="https://salsa.debian.org/med-team/libmaus2/-/commit/ab8fa5e26bb32ebb3fff940a9c56b37ce24ef78e#483e822d79d86c3d9c93071b3d8138f13679b6a6"><strong>src/libmaus2/geometry/RangeSet.hpp</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -24,7 +24,6 @@</td>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="cpp"><span class="cp" style="color: #999; font-weight: 600;">#include <deque></span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="cpp"><span class="cp" style="color: #999; font-weight: 600;">#include <cassert></span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="cpp"><span class="cp" style="color: #999; font-weight: 600;">#include <libmaus2/math/IntegerInterval.hpp></span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="cpp"><span class="cp" style="color: #999; font-weight: 600;">#include <libmaus2/util/SimpleQueue.hpp></span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="cpp"><span class="k" style="font-weight: 600;">namespace</span> <span class="n" style="color: #333;">libmaus2</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="cpp"><span class="p">{</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -496,93 +495,126 @@ namespace libmaus2</td>
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<pre style="margin: 0;"> <span id="LC495" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC496" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">search</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC497" class="line" lang="cpp"> <span class="n" style="color: #333;">element_type</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">elem</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC499" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;"><span class="idiff left">util</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">SimpleQueue</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><</span></span><span class="n" style="color: #333;"><span class="idiff">search_q_element</span></span><span class="o" style="font-weight: 600;"><span class="idiff">></span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">&</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">todo</span></span></span>
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<pre style="margin: 0;">+<span id="LC498" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;"><span class="idiff left">autoarray</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">AutoArray</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><</span></span><span class="n" style="color: #333;"><span class="idiff">search_q_element</span></span><span class="o" style="font-weight: 600;"><span class="idiff">></span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">&</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">S</span></span></span>
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<pre style="margin: 0;"> <span id="LC499" class="line" lang="cpp"> <span class="p">)</span> <span class="k" style="font-weight: 600;">const</span></span>
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<pre style="margin: 0;"> <span id="LC500" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC501" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">S_o</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC502" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC503" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC504" class="line" lang="cpp"> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">clear</span><span class="p">();</span></span>
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<pre style="margin: 0;">-<span id="LC505" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC504" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// if element is not empty</span></span>
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<pre style="margin: 0;"> <span id="LC505" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">()</span> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC506" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// push it</span></span>
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<pre style="margin: 0;">-<span id="LC509" class="line" lang="cpp"> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">k</span><span class="p">,</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">(),</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">(),</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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<pre style="margin: 0;">+<span id="LC507" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// todo.push_back(search_q_element(k /* level */,search_upair(elem.getFrom(),elem.getTo())));</span></span>
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508
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<pre style="margin: 0;">+<span id="LC508" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// todo.push_back(search_q_element(0/*visit*/,k,elem.getFrom(),elem.getTo(),0,0,0,0));</span></span>
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509
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<pre style="margin: 0;">+<span id="LC509" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="cm" style="color: #998; font-style: italic;">/*visit*/</span><span class="p">,</span><span class="n" style="color: #333;">k</span><span class="p">,</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">(),</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">(),</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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510
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<pre style="margin: 0;">+<span id="LC510" class="line" lang="cpp"></span>
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511
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<pre style="margin: 0;">+<span id="LC511" class="line" lang="cpp"> <span class="c" style="color: #998; font-style: italic;">#if 0</span></span>
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512
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<pre style="margin: 0;">+<span id="LC512" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;"> std::cerr << std::string(80,'-') << std::endl;</span></span>
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513
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<pre style="margin: 0;">+<span id="LC513" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;"> #endif</span></span>
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514
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<pre style="margin: 0;"> <span id="LC514" class="line" lang="cpp"></span>
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515
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<pre style="margin: 0;"> <span id="LC515" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// while we have intervals to be checked</span></span>
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<pre style="margin: 0;">-<span id="LC512" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span> <span class="o" style="font-weight: 600;"><span class="idiff left">!</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">todo</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">empty</span></span><span class="p"><span class="idiff right">()</span></span> <span class="p">)</span></span>
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516
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<pre style="margin: 0;">+<span id="LC516" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span> <span class="n" style="color: #333;"><span class="idiff left right">S_o</span></span> <span class="p">)</span></span>
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517
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<pre style="margin: 0;"> <span id="LC517" class="line" lang="cpp"> <span class="p">{</span></span>
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518
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<pre style="margin: 0;">+<span id="LC518" class="line" lang="cpp"> <span class="c" style="color: #998; font-style: italic;">#if 0</span></span>
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519
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<pre style="margin: 0;">+<span id="LC519" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;"> for ( uint64_t i = 0; i < S.size(); ++i )</span></span>
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520
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<pre style="margin: 0;">+<span id="LC520" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;"> std::cerr << std::string(i,' ') << S[i].toString() << std::endl;</span></span>
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521
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<pre style="margin: 0;">+<span id="LC521" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;"> std::cerr << S.size() << "\t" << S.back().toString() << std::endl;</span></span>
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522
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<pre style="margin: 0;">+<span id="LC522" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;"> #endif</span></span>
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523
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<pre style="margin: 0;">+<span id="LC523" class="line" lang="cpp"></span>
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<pre style="margin: 0;"> <span id="LC524" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// get next interval</span></span>
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<pre style="margin: 0;">-<span id="LC515" class="line" lang="cpp"> <span class="n" style="color: #333;">search_q_element</span> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">front</span><span class="p">();</span></span>
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<pre style="margin: 0;">-<span id="LC516" class="line" lang="cpp"> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">pop_front</span><span class="p">();</span></span>
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<pre style="margin: 0;">+<span id="LC525" class="line" lang="cpp"> <span class="n" style="color: #333;">search_q_element</span> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">S</span><span class="p">[</span><span class="o" style="font-weight: 600;">--</span><span class="n" style="color: #333;">S_o</span><span class="p">];</span></span>
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<pre style="margin: 0;"> <span id="LC526" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC518" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// level</span></span>
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<pre style="margin: 0;">-<span id="LC519" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">level</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">first</span><span class="p">;</span></span>
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527
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<pre style="margin: 0;">+<span id="LC527" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">visit</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC528" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC529" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// level</span></span>
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<pre style="margin: 0;">+<span id="LC530" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">level</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC531" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC521" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// base bin for level</span></span>
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<pre style="margin: 0;">-<span id="LC522" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">basebin</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="mi" style="color: #099;">1ull</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">level</span><span class="p">)</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC523" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// div/split size for level</span></span>
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<pre style="margin: 0;">-<span id="LC524" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">div</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="mi" style="color: #099;"><span class="idiff">1ull</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><<</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">first</span></span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">));</span></span>
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<pre style="margin: 0;">+<span id="LC532" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="c1" style="color: #998; font-style: italic;">// base bin for level</span></span>
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<pre style="margin: 0;">+<span id="LC533" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">basebin</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="mi" style="color: #099;">1ull</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">level</span><span class="p">)</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC534" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="c1" style="color: #998; font-style: italic;">// div/split size for level</span></span>
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<pre style="margin: 0;">+<span id="LC535" class="line" lang="cpp"> <span class="idiff left"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">div</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="mi" style="color: #099;"><span class="idiff">1ull</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><<</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">level</span></span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">));</span></span>
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<pre style="margin: 0;"> <span id="LC536" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC526" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">mask</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">first</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">>=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">)</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">?</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="k" style="font-weight: 600;"><span class="idiff">static_cast</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint64_t</span></span><span class="o" style="font-weight: 600;"><span class="idiff">></span></span><span class="p"><span class="idiff">(</span></span><span class="mi" style="color: #099;"><span class="idiff">1ull</span></span><span class="p"><span class="idiff">)</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><<</span></span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">first</span></span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="k" style="font-weight: 600;">static_cast</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC537" class="line" lang="cpp"> <span class="idiff left"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">mask</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">level</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">>=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">)</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">?</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="k" style="font-weight: 600;"><span class="idiff">static_cast</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><</span></span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint64_t</span></span><span class="o" style="font-weight: 600;"><span class="idiff">></span></span><span class="p"><span class="idiff">(</span></span><span class="mi" style="color: #099;"><span class="idiff">1ull</span></span><span class="p"><span class="idiff">)</span></span><span class="o" style="font-weight: 600;"><span class="idiff"><<</span></span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">level</span></span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="k" style="font-weight: 600;">static_cast</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC538" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC528" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// interval</span></span>
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<pre style="margin: 0;">-<span id="LC529" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">low</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">second</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">first</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC530" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">high</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">second</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">second</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC531" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// bin for low end</span></span>
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<pre style="margin: 0;">-<span id="LC532" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">bin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">basebin</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">low</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">div</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC539" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="c1" style="color: #998; font-style: italic;">// interval</span></span>
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<pre style="margin: 0;">+<span id="LC540" class="line" lang="cpp"> <span class="idiff left"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">low</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">from</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC541" class="line" lang="cpp"> <span class="idiff left"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint64_t</span></span><span class="idiff"> </span><span class="k" style="font-weight: 600;"><span class="idiff">const</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">high</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">to</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC542" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="c1" style="color: #998; font-style: italic;">// bin for low end</span></span>
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<pre style="margin: 0;">+<span id="LC543" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">bin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">basebin</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">low</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">div</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC534" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// see if we have anything in bin matching low end</span></span>
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<pre style="margin: 0;">-<span id="LC535" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">bins</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">bins</span><span class="p">.</span><span class="n" style="color: #333;">end</span><span class="p">()</span> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC536" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC537" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// get list of entries in bin</span></span>
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<pre style="margin: 0;">-<span id="LC538" class="line" lang="cpp"> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">element_type</span><span class="o" style="font-weight: 600;">></span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">V</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bins</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">)</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">second</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC539" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// compute intersections between elements in bin and query</span></span>
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<pre style="margin: 0;">-<span id="LC540" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">V</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC545" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// see if we have anything in bin matching low end</span></span>
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<pre style="margin: 0;">+<span id="LC546" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">bins</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">bins</span><span class="p">.</span><span class="n" style="color: #333;">end</span><span class="p">()</span> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC547" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC542" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">math</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">IntegerInterval</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">I0</span><span class="p">(</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">(),</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC543" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">math</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">IntegerInterval</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">I1</span><span class="p">(</span><span class="n" style="color: #333;">V</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">getFrom</span><span class="p">(),</span><span class="n" style="color: #333;">V</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC544" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">I0</span><span class="p">.</span><span class="n" style="color: #333;">intersection</span><span class="p">(</span><span class="n" style="color: #333;">I1</span><span class="p">).</span><span class="n" style="color: #333;">isEmpty</span><span class="p">()</span> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC545" class="line" lang="cpp"> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC548" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// get list of entries in bin</span></span>
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<pre style="margin: 0;">+<span id="LC549" class="line" lang="cpp"> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">element_type</span><span class="o" style="font-weight: 600;">></span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">V</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bins</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">)</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">second</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC550" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// compute intersections between elements in bin and query</span></span>
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<pre style="margin: 0;">+<span id="LC551" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">V</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC552" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC553" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">math</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">IntegerInterval</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">I0</span><span class="p">(</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">(),</span><span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC554" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">math</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">IntegerInterval</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">I1</span><span class="p">(</span><span class="n" style="color: #333;">V</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">getFrom</span><span class="p">(),</span><span class="n" style="color: #333;">V</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC555" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">I0</span><span class="p">.</span><span class="n" style="color: #333;">intersection</span><span class="p">(</span><span class="n" style="color: #333;">I1</span><span class="p">).</span><span class="n" style="color: #333;">isEmpty</span><span class="p">()</span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC556" class="line" lang="cpp"> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC557" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC558" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC547" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC559" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC549" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// std::cerr << level << "," << q.first << "," << q.second.first << "," << q.second.second << "," << basebin << "," << div << "," << bin << std::endl;</span></span>
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<pre style="margin: 0;">+<span id="LC560" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="c1" style="color: #998; font-style: italic;">// std::cerr << level << "," << q.first << "," << q.second.first << "," << q.second.second << "," << basebin << "," << div << "," << bin << std::endl;</span></span>
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<pre style="margin: 0;"> <span id="LC561" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC551" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// query interval should not be empty</span></span>
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<pre style="margin: 0;">-<span id="LC552" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">hlok</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">high</span><span class="o" style="font-weight: 600;">></span><span class="n" style="color: #333;">low</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC562" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="c1" style="color: #998; font-style: italic;">// query interval should not be empty</span></span>
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<pre style="margin: 0;">+<span id="LC563" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">hlok</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">high</span><span class="o" style="font-weight: 600;">></span><span class="n" style="color: #333;">low</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC564" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC554" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="o" style="font-weight: 600;">!</span> <span class="n" style="color: #333;">hlok</span> <span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC555" class="line" lang="cpp"> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC556" class="line" lang="cpp"> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">exception</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">LibMausException</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC557" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[E] RangeSet<>::search(): interval ["</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">","</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">") len "</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">len</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">" high="</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">high</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">" low="</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC558" class="line" lang="cpp"> <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>
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<pre style="margin: 0;">-<span id="LC559" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC560" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC565" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="o" style="font-weight: 600;">!</span> <span class="n" style="color: #333;">hlok</span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC566" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC567" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">exception</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">LibMausException</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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568
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<pre style="margin: 0;">+<span id="LC568" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[E] RangeSet<>::search(): interval ["</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getFrom</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">","</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">elem</span><span class="p">.</span><span class="n" style="color: #333;">getTo</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">") len "</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">len</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">" high="</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">high</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">" low="</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>
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569
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<pre style="margin: 0;">+<span id="LC569" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>
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570
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<pre style="margin: 0;">+<span id="LC570" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>
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571
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<pre style="margin: 0;">+<span id="LC571" class="line" lang="cpp"> <span class="idiff left right"> </span><span class="p">}</span></span>
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572
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<pre style="margin: 0;"> <span id="LC572" class="line" lang="cpp"></span>
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562
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573
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<pre style="margin: 0;"> <span id="LC573" class="line" lang="cpp"></span>
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574
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<pre style="margin: 0;">+<span id="LC574" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// do we cross the bin split bound?</span></span>
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575
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<pre style="margin: 0;">+<span id="LC575" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">cross</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="n" style="color: #333;">high</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">mask</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="p">(</span><span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">mask</span><span class="p">);</span></span>
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563
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576
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<pre style="margin: 0;"> <span id="LC576" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC564" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// do we cross the bin split bound?</span></span>
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565
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<pre style="margin: 0;">-<span id="LC565" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">cross</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="n" style="color: #333;">high</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">mask</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="p">(</span><span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">mask</span><span class="p">);</span></span>
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577
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<pre style="margin: 0;">+<span id="LC577" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">cross</span> <span class="p">)</span></span>
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578
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<pre style="margin: 0;">+<span id="LC578" class="line" lang="cpp"> <span class="p">{</span></span>
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579
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<pre style="margin: 0;">+<span id="LC579" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">mid</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">)</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">)</span><span class="o" style="font-weight: 600;"><<</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">;</span></span>
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566
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580
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<pre style="margin: 0;"> <span id="LC580" class="line" lang="cpp"></span>
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567
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<pre style="margin: 0;">-<span id="LC567" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">cross</span> <span class="p">)</span></span>
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568
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<pre style="margin: 0;">-<span id="LC568" class="line" lang="cpp"> <span class="p">{</span></span>
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569
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<pre style="margin: 0;">-<span id="LC569" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">mid</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">first</span><span class="p">)</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">)</span><span class="o" style="font-weight: 600;"><<</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">first</span><span class="p">;</span></span>
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581
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<pre style="margin: 0;">+<span id="LC581" class="line" lang="cpp"> <span class="n" style="color: #333;">assert</span> <span class="p">(</span> <span class="n" style="color: #333;">low</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">mid</span> <span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC582" class="line" lang="cpp"> <span class="n" style="color: #333;">assert</span> <span class="p">(</span> <span class="n" style="color: #333;">mid</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">high</span> <span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC583" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC571" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// std::cerr << "low=" << low << ",mid=" << mid << ",high=" << high << std::endl;</span></span>
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584
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<pre style="margin: 0;">+<span id="LC584" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">from</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">to</span><span class="p">,</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="n" style="color: #333;">cross</span><span class="p">));</span></span>
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585
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<pre style="margin: 0;">+<span id="LC585" class="line" lang="cpp"> <span class="p">}</span></span>
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586
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<pre style="margin: 0;">+<span id="LC586" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span></span>
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587
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<pre style="margin: 0;">+<span id="LC587" class="line" lang="cpp"> <span class="p">{</span></span>
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588
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<pre style="margin: 0;">+<span id="LC588" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">from</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">to</span><span class="p">,</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="n" style="color: #333;">cross</span><span class="p">));</span></span>
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589
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<pre style="margin: 0;">+<span id="LC589" class="line" lang="cpp"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC590" class="line" lang="cpp"> <span class="p">}</span></span>
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591
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<pre style="margin: 0;">+<span id="LC591" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">visit</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span> <span class="p">)</span></span>
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592
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<pre style="margin: 0;">+<span id="LC592" class="line" lang="cpp"> <span class="p">{</span></span>
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593
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<pre style="margin: 0;">+<span id="LC593" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">visit</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">from</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">to</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">cross</span><span class="p">));</span></span>
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572
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594
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<pre style="margin: 0;"> <span id="LC594" class="line" lang="cpp"></span>
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<pre style="margin: 0;">-<span id="LC573" class="line" lang="cpp"> <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">ok</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">mid</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">low</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&&</span> <span class="p">(</span><span class="n" style="color: #333;">high</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">mid</span><span class="p">);</span></span>
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574
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<pre style="margin: 0;">-<span id="LC574" class="line" lang="cpp"> <span class="n" style="color: #333;">assert</span> <span class="p">(</span> <span class="n" style="color: #333;">ok</span> <span class="p">);</span></span>
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595
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<pre style="margin: 0;">+<span id="LC595" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">cross</span> <span class="p">)</span></span>
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596
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<pre style="margin: 0;">+<span id="LC596" class="line" lang="cpp"> <span class="p">{</span></span>
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597
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<pre style="margin: 0;">+<span id="LC597" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">0</span> <span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC598" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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599
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<pre style="margin: 0;">+<span id="LC599" class="line" lang="cpp"> <span class="p">}</span></span>
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600
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<pre style="margin: 0;"> <span id="LC600" class="line" lang="cpp"></span>
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576
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<td class="diff-line-num new_line old" data-linenumber="601" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC576" class="line" lang="cpp"> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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577
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<pre style="margin: 0;">-<span id="LC577" class="line" lang="cpp"> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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578
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601
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<pre style="margin: 0;"> <span id="LC601" class="line" lang="cpp"> <span class="p">}</span></span>
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579
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<pre style="margin: 0;">-<span id="LC579" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;"><span class="idiff left">first</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">>=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span> <span class="p">)</span></span>
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602
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<pre style="margin: 0;">+<span id="LC602" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;"><span class="idiff left">visit</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">2</span></span> <span class="p">)</span></span>
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580
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603
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<pre style="margin: 0;"> <span id="LC603" class="line" lang="cpp"> <span class="p">{</span></span>
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<td class="diff-line-num new_line old" data-linenumber="604" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC581" class="line" lang="cpp"> <span class="n" style="color: #333;">todo</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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<td class="diff-line-num new new_line" data-linenumber="604" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
604
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<pre style="margin: 0;">+<span id="LC604" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">visit</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">from</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">to</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">cross</span><span class="p">));</span></span>
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605
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<pre style="margin: 0;">+<span id="LC605" class="line" lang="cpp"></span>
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<td class="diff-line-num new new_line" data-linenumber="606" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
606
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<pre style="margin: 0;">+<span id="LC606" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">cross</span> <span class="p">)</span></span>
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607
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<pre style="margin: 0;">+<span id="LC607" class="line" lang="cpp"> <span class="p">{</span></span>
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608
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<pre style="margin: 0;">+<span id="LC608" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">low</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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<td class="diff-line-num new new_line" data-linenumber="609" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
609
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<pre style="margin: 0;">+<span id="LC609" class="line" lang="cpp"> <span class="p">}</span></span>
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610
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<pre style="margin: 0;">+<span id="LC610" class="line" lang="cpp"></span>
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582
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611
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<pre style="margin: 0;"> <span id="LC611" class="line" lang="cpp"> <span class="p">}</span></span>
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583
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<pre style="margin: 0;">-<span id="LC583" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span></span>
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612
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<pre style="margin: 0;">+<span id="LC612" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">else</span><span class="idiff left"> </span><span class="k" style="font-weight: 600;"><span class="idiff">if</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">q</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">visit</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">3</span></span><span class="idiff"> </span><span class="p"><span class="idiff right">)</span></span></span>
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584
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613
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<pre style="margin: 0;"> <span id="LC613" class="line" lang="cpp"> <span class="p">{</span></span>
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585
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<pre style="margin: 0;">-<span id="LC585" class="line" lang="cpp"> <span class="c1" style="color: #998; font-style: italic;">// std::cerr << "base " << low << "," << high << " bin " << bin << std::endl;</span></span>
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614
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<pre style="margin: 0;">+<span id="LC614" class="line" lang="cpp"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">cross</span> <span class="p">)</span></span>
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615
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<pre style="margin: 0;">+<span id="LC615" class="line" lang="cpp"> <span class="p">{</span></span>
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616
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<pre style="margin: 0;">+<span id="LC616" class="line" lang="cpp"> <span class="n" style="color: #333;">S</span><span class="p">.</span><span class="n" style="color: #333;">push</span><span class="p">(</span><span class="n" style="color: #333;">S_o</span><span class="p">,</span><span class="n" style="color: #333;">search_q_element</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">level</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">mid</span><span class="p">,</span><span class="n" style="color: #333;">q</span><span class="p">.</span><span class="n" style="color: #333;">high</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">));</span></span>
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617
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<pre style="margin: 0;">+<span id="LC617" class="line" lang="cpp"> <span class="p">}</span></span>
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586
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618
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<pre style="margin: 0;"> <span id="LC618" class="line" lang="cpp"> <span class="p">}</span></span>
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587
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619
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<pre style="margin: 0;"> <span id="LC619" class="line" lang="cpp"> <span class="p">}</span></span>
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588
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620
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<pre style="margin: 0;"> <span id="LC620" class="line" lang="cpp"></span>
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