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<h3>
Aaron M. Ucko pushed to branch master
at <a href="https://salsa.debian.org/med-team/ncbi-vdb">Debian Med / ncbi-vdb</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/5bf59d5ad41febf7c0758f813a7ede0c2014c2ad">5bf59d5a</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-18T22:24:08-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Formally start work on ncbi-vdb 2.10.6+dfsg-2.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/a99de6a34fda0e0ef017ad7ed0a38d4eafeffee0">a99de6a3</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-18T22:24:50-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">libs/vfs/services-priv.h -> .../services-priv-internal.h.
Install libs/vfs/services-priv.h as .../services-priv-internal.h to
distinguish it from interfaces/vfs/services-priv.h. (Neither can
stand in for the other.)
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/0e09b496d5e74d68d530f971bff350925c3b1067">0e09b496</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-19T22:12:02-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Formally refresh patches that developed offsets.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/d660898ef500bc196c5cda6fb5fef27f61cb1e3c">d660898e</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-19T22:40:43-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Always include libmbedx509-0 quirk per new DSLMFLAGS macro.
Factor out a new DSLMFLAGS macro for common d-shlibmove flags; include
the libmbedx509-0 quirk there since it will soon be needed everywhere.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/ab68936cd9ec6587ac15c7e6b64409ddde7a9478">ab68936c</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-19T22:44:39-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix system (mbed*/z/bz2) library linkage (#952623, #952627, #953897)
Address remaining underlinkage of system libraries (mbed*, z, bz2).
At this point, the only remaining unresolved references are of libkdf5
against symbols that could come from either libncbi-vdb or libncbi-wvdb.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/1fe42a587b22d071ce91e04277f0d39a7bfdf0c9">1fe42a58</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-19T22:47:23-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Copy headers rather than moving them to allow for consecutive builds.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/042c11886537a3435bab823c9010f649574f0eec">042c1188</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-19T22:50:02-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix typo in override_dh_missing name; supply debian/not-installed.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-vdb/-/commit/78ecbf0f4d929b2402091d98718f86c469df6492">78ecbf0f</a></strong>
<div>
<span>by Aaron M. Ucko</span>
<i>at 2020-05-19T22:51:28-04:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add myself (A. Ucko) to Uploaders.
</pre>
</li>
</ul>
<h4>8 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#1823cfdb97f631de92d185f9a7ef6c1f58bc9147">
<span class="new-file">
+
debian/not-installed
</span>
</a>
</li>
<li class="file-stats">
<a href="#cf39ab68d9d81e8ea74886f9556a67f049e65150">
debian/patches/fix_linking.patch
</a>
</li>
<li class="file-stats">
<a href="#7900bbc7deb8691929abfe4314ae83c60f651c15">
debian/patches/skip_failing_test.patch
</a>
</li>
<li class="file-stats">
<a href="#009708d204ad3859ac4f374f0a54ff90f3e158f2">
debian/patches/use_debian_packaged_libmbedx.patch
</a>
</li>
<li class="file-stats">
<a href="#966bb4d5dd1abaf8ad19f277388bf088d452d07d">
debian/patches/use_debian_packaged_zlib.patch
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">ncbi-vdb (2.10.6+dfsg-2) UNRELEASED; urgency=medium</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="2" 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="LC2" class="line" lang="plaintext"></span>
</pre>
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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"> * NOT RELEASED YET.</span>
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<td class="diff-line-num new new_line" data-linenumber="4" 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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Install libs/vfs/services-priv.h as .../services-priv-internal.h to</span>
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<td class="diff-line-num new new_line" data-linenumber="5" 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="LC5" class="line" lang="plaintext"> distinguish it from interfaces/vfs/services-priv.h. (Neither can</span>
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<td class="diff-line-num new new_line" data-linenumber="6" 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="LC6" class="line" lang="plaintext"> stand in for the other.)</span>
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<td class="diff-line-num new new_line" data-linenumber="7" 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="LC7" class="line" lang="plaintext"> * Formally refresh patches that developed offsets.</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="8" 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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * Factor out a new DSLMFLAGS macro for common d-shlibmove flags; include</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="9" 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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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> the libmbedx509-0 quirk there since it will soon be needed everywhere.</span>
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<td class="diff-line-num new new_line" data-linenumber="10" 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="LC10" class="line" lang="plaintext"> * Address remaining underlinkage of system libraries (mbed*, z, bz2).</span>
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<td class="diff-line-num new new_line" data-linenumber="11" 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="LC11" class="line" lang="plaintext"> At this point, the only remaining unresolved references are of libkdf5</span>
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<td class="diff-line-num new new_line" data-linenumber="12" 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="LC12" class="line" lang="plaintext"> against symbols that could come from either libncbi-vdb or libncbi-wvdb.</span>
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<td class="diff-line-num new new_line" data-linenumber="13" 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="LC13" class="line" lang="plaintext"> (Closes: #952623, #952627, #953897.)</span>
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<td class="diff-line-num new new_line" data-linenumber="14" 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="LC14" class="line" lang="plaintext"> * Copy headers rather than moving them to allow for consecutive builds.</span>
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<td class="diff-line-num new new_line" data-linenumber="15" 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="LC15" class="line" lang="plaintext"> * Fix typo in override_dh_missing name; supply debian/not-installed.</span>
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<td class="diff-line-num new new_line" data-linenumber="16" 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="LC16" class="line" lang="plaintext"> * Add myself to Uploaders.</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> -- Aaron M. Ucko <ucko@debian.org> Tue, 19 May 2020 22:51:09 -0400</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">ncbi-vdb (2.10.6+dfsg-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> * Team upload.</span>
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<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Source: ncbi-vdb</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org><span class="idiff left right">, Aaron M. Ucko <ucko@debian.org></span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12),</span>
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<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#1823cfdb97f631de92d185f9a7ef6c1f58bc9147"><strong>debian/not-installed</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">/usr/ncbi-vdb/*/gcc/*/dbg/bin/ncbi/*.kfg</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">/usr/ncbi-vdb/*/gcc/*/dbg/ilib/*</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">/usr/ncbi-vdb/*/gcc/*/dbg/lib/libdiagnose.*</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">/usr/ncbi-vdb/*/gcc/*/dbg/lib/ncbi/*.kfg</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">/usr/ncbi-vdb/*/gcc/*/dbg/obj/libs/*/*</span></pre>
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<li id="cf39ab68d9d81e8ea74886f9556a67f049e65150">
<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#cf39ab68d9d81e8ea74886f9556a67f049e65150"><strong>debian/patches/fix_linking.patch</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">@@ -22,7 +22,7 @@ Last-Update: Tue, 28 Aug 2018 07:55:59 +0200</td>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="diff"> $(LD) --slib --vers $(SRCDIR)/../ncbi-vdb/libncbi-vdb.vers -o $@ $^ $(KDF5_LIB)</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/libs/ncbi-vdb/Makefile</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/libs/ncbi-vdb/Makefile</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="diff"><span class="p">@@ -12<span class="idiff left right">4,7 +124</span>,7 @@</span> VDB_LIB = \</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="p">@@ -12<span class="idiff left right">5,7 +125</span>,7 @@</span> VDB_LIB = \</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="diff"> $(LIBDIR)/libncbi-vdb.$(SHLX): $(VDB_OBJ)</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="diff"> echo $(SRCDIR)</span>
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<li id="7900bbc7deb8691929abfe4314ae83c60f651c15">
<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#7900bbc7deb8691929abfe4314ae83c60f651c15"><strong>debian/patches/skip_failing_test.patch</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">@@ -5,7 +5,7 @@ Description: Skip some tests that are failing in pbuilder.</td>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff"></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="diff">--- ncbi-vdb.orig/test/kfg/kfgtest.cpp</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ncbi-vdb/test/kfg/kfgtest.cpp</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="diff"><span class="p">@@ -<span class="idiff left right">759,6 +759</span>,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="p">@@ -<span class="idiff left right">804,6 +804</span>,7 @@</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="diff"> string ngcPath("./prj_2956.ngc");</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="diff"> C::t(ngcPath);</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="diff"> Cleaner cleaner(wd);</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="13" 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">@@ -13,7 +13,7 @@ Description: Skip some tests that are failing in pbuilder.</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="diff"> REQUIRE_RC(KConfigImportNgc(kfg, ngcPath.c_str(), "repos/ngc/", &newRepo));</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="diff"> TEST_MESSAGE("KConfigImportNgc(" << ngcPath << ")");</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="diff"> // contents of the input file:</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="diff"><span class="p">@@ -8<span class="idiff left right">25,6 +826</span>,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="p">@@ -8<span class="idiff left right">70,6 +871</span>,7 @@</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="diff"> REQUIRE_EQ(string(newRepo), string("repos/ngc/"));</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="diff"> REQUIRE_RC(KDirectoryRemove(wd, true, "repos"));</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="21" 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="21" 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">@@ -21,7 +21,7 @@ Description: Skip some tests that are failing in pbuilder.</td>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="diff"> }</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="diff"> #endif</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="diff"> </span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="diff"><span class="p">@@ -8<span class="idiff left right">33,15 +835</span>,19 @@</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"><span class="p">@@ -8<span class="idiff left right">78,15 +880</span>,19 @@</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="diff"> CreateAndLoad(GetName(), "\n");</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="diff"> const char* newRepo;</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="diff"> Cleaner cleaner(wd);</span>
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<li id="009708d204ad3859ac4f374f0a54ff90f3e158f2">
<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#009708d204ad3859ac4f374f0a54ff90f3e158f2"><strong>debian/patches/use_debian_packaged_libmbedx.patch</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">@@ -15,18 +15,34 @@ Description: Somehow Build system expects a copy of libmbedx509.a which is</td>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="diff"> kns \</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="diff"> kfg \</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="diff"> krypto \</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="diff"><span class="p">@@ -128,7 +125,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="p">@@ -124,7 +121,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> $(addprefix $(ILIBDIR)/lib,$(addsuffix .a,$(VDB_LIB_RD)))</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> VDB_LIB = \</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $(addprefix -s,$(VDB_LIB_RD))</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(addprefix -s,$(VDB_LIB_RD)) -lmbedx509 -lmbedtls -lmbedcrypto</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="diff"> $(LIBDIR)/libncbi-vdb.$(SHLX): $(VDB_OBJ)</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="diff"> echo $(SRCDIR)</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $(LD) --dlib --vers $(SRCDIR)/libncbi-vdb.vers -o $@ $(VDB_LIB)</span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(LD) --dlib --vers $(SRCDIR)/libncbi-vdb.vers -o $@ $(VDB_LIB) -lmbedx509 -lmbedtls -lmbedcrypto</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="p">@@ -150,7 +147,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> $(addprefix $(ILIBDIR)/lib,$(addsuffix .a,$(VDB_LIB_RDWR)))</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> WVDB_LIB = \</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $(addprefix -s,$(VDB_LIB_RDWR))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="32" 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="LC32" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(addprefix -s,$(VDB_LIB_RDWR)) -lmbedx509 -lmbedtls -lmbedcrypto</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"> $(LIBDIR)/libncbi-wvdb.$(SHLX): $(WVDB_OBJ)</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> $(LD) --dlib --vers $(SRCDIR)/libncbi-vdb.vers -o $@ $(WVDB_LIB)</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"><span class="p">@@ -165,4 +162,4 @@</span></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"> $(TOP)/build/ld.sh linux x86_64 gcc --build dbg --ldflags "-g -m64" --objx o --shlx so --libx a --srcdir $(SRCDIR) --bindir $(BINDIR) --slib -o $(FLIBDIR)/libncbi-vdb.$(LIBX) -L$(FLIBDIR) $(VDB_LIB)</span>
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24
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="diff"> </span>
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25
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="diff"> $(LIBDIR)/libncbi-vdb.$(LIBX): $(VDB_OBJ)</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="diff"> $(LD) --slib --vers $(SRCDIR)/libncbi-vdb.vers -o $@ $(VDB_LIB)</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"> cleanfuzz:</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- rm -rf $(FLIBDIR)/*</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"><span class="err" style="color: #a61717; background-color: #e3d2d2;">\</span> No newline at end of file</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ rm -rf $(FLIBDIR)/*</span></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- ncbi-vdb.orig/libs/kns/Makefile</span></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ncbi-vdb/libs/kns/Makefile</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="diff"><span class="p">@@ -10<span class="idiff left right">8,7 +108</span>,8 @@</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="diff"><span class="p">@@ -10<span class="idiff left right">9,7 +109</span>,8 @@</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="diff"> KNS_LIB = \</span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="diff"> -lkfs \</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="69" 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="85" 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">@@ -69,3 +85,14 @@ Description: Somehow Build system expects a copy of libmbedx509.a which is</td>
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="diff"> $(LIBDIR)/libkdf5.$(LIBX): $(KDF5_OBJ)</span>
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<td class="diff-line-num old_line" data-linenumber="71" 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">
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="diff"> $(LD) --slib --vers $(SRCDIR)/../ncbi-vdb/libncbi-vdb.vers -o $@ $^ $(KDF5_LIB)</span>
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- ncbi-vdb.orig/libs/vdb-sqlite/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ncbi-vdb/libs/vdb-sqlite/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="diff"><span class="p">@@ -85,7 +85,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="diff"> $(addsuffix .$(LOBX),$(VDB_SQLITE_SRC))</span>
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="diff"> VDB_SQLITE_LIB = \</span>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- -sncbi-vdb -lz -lbz2</span></span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ -sncbi-vdb -lmbedx509 -lmbedtls -lmbedcrypto -lz -lbz2</span></span>
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96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="diff"> VDB_SQLITE_VERS = \</span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="diff"> $(SRCDIR)/../ncbi-vdb/libncbi-vdb.vers</span></pre>
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<br>
</li>
<li id="966bb4d5dd1abaf8ad19f277388bf088d452d07d">
<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#966bb4d5dd1abaf8ad19f277388bf088d452d07d"><strong>debian/patches/use_debian_packaged_zlib.patch</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">@@ -3,8 +3,6 @@ Last-Update: Tue, 12 Jul 2016 16:15:32 +0200</td>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="diff"><span class="p">Description: External copy of bz2 and zlib are removed - exclude these from</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="diff"> build system as well.</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="diff">Index: ncbi-vdb/libs/Makefile</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="diff">--- ncbi-vdb.orig/libs/Makefile</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ncbi-vdb/libs/Makefile</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="diff"><span class="p">@@ -35,7 +35,6 @@</span> include $(TOP)/build/Makefile.config</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="15" 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">@@ -15,8 +13,6 @@ Index: ncbi-vdb/libs/Makefile</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="diff"> kfc \</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="diff"> klib \</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="diff"> kproc \</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="diff"><span class="gh" style="color: #999;">Index: ncbi-vdb/libs/ncbi-vdb/Makefile</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- ncbi-vdb.orig/libs/ncbi-vdb/Makefile</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ncbi-vdb/libs/ncbi-vdb/Makefile</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="diff"><span class="p">@@ -104,9 +104,7 @@</span> VDB_LIB_CMN = \</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">@@ -30,3 +26,14 @@ Index: ncbi-vdb/libs/ncbi-vdb/Makefile</td>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="diff"> VDB_LIB_RD = \</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="diff"> align-reader \</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- ncbi-vdb.orig/libs/vdb-sqlite/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ncbi-vdb/libs/vdb-sqlite/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="p">@@ -85,7 +85,7 @@</span> VDB_SQLITE_OBJ = \</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"> $(addsuffix .$(LOBX),$(VDB_SQLITE_SRC))</span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"> VDB_SQLITE_LIB = \</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- -sncbi-vdb</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ -sncbi-vdb -lz -lbz2</span></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"> VDB_SQLITE_VERS = \</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"> $(SRCDIR)/../ncbi-vdb/libncbi-vdb.vers</span></pre>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/ncbi-vdb/-/compare/56bfd08586628125124401f9c42067ef0715cdb3...78ecbf0f4d929b2402091d98718f86c469df6492#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</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">@@ -17,6 +17,8 @@ VDB_ARCH := $(word 1, $(subst -, ,$(DEB_HOST_MULTIARCH)))</td>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">LIBINSTALLDIR := debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/$(VDB_ARCH)/dbg/lib</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">LIBPKG := libncbi-vdb2</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">SCHEMADIR := debian/$(LIBPKG)/usr/lib/$(DEB_SOURCE)</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">DSLMFLAGS := --commit --multiarch --devunversioned --exclude-la \</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> --override s/libmbedx509-0-dev/libmbedtls-dev/</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"># See debian/patches/fix-linking</span>
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22
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24
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"># export DEB_LDFLAGS_MAINT_APPEND := -Wl,-z,defs -Wl,--as-needed</span>
</pre>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="73" 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">@@ -71,11 +73,7 @@ override_dh_auto_install:</td>
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71
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73
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="plaintext"> mv $(LIBINSTALLDIR)/`readlink $$slib` $$slib ; \</span>
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72
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74
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="plaintext"> mv $(LIBINSTALLDIR)/`readlink $$slib` $$slib ; \</span>
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73
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75
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="plaintext"> done</span>
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74
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="plaintext"> d-shlibmove --commit \</span>
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75
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="plaintext"> --multiarch \</span>
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<td class="diff-line-num old old_line" data-linenumber="76" 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">
76
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="plaintext"> --devunversioned \</span>
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<td class="diff-line-num old old_line" data-linenumber="77" 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">
77
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="plaintext"> --exclude-la \</span>
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<td class="diff-line-num old old_line" data-linenumber="78" 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">
78
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="plaintext"> --override s/libmbedx509-0-dev/libmbedtls-dev/ \</span>
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<td class="diff-line-num new old_line" data-linenumber="79" 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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76
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="plaintext"> d-shlibmove $(DSLMFLAGS) \</span>
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<td class="diff-line-num old_line" data-linenumber="79" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
79
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77
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<pre style="margin: 0;"> <span id="LC77" class="line" lang="plaintext"> --movedev debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/lib/libncbi-ngs-c++.a usr/lib/$(MULTIARCH) \</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="80" 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">
80
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78
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="plaintext"> --movedev debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/ilib/libkapp.a usr/lib/$(MULTIARCH) \</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="81" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
81
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79
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="plaintext"> --movedev debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/ilib/libkapp-norsrc.a usr/lib/$(MULTIARCH) \</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="86" 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="84" 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">@@ -86,28 +84,19 @@ override_dh_auto_install:</td>
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86
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84
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="plaintext"> --movedev debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/ilib/libload.a usr/lib/$(MULTIARCH) \</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="87" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
87
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85
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="plaintext"> --movedev debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/ilib/libtui.a usr/lib/$(MULTIARCH) \</span>
</pre>
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88
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86
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="plaintext"> --movedev debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/ilib/libtui_cpp.a usr/lib/$(MULTIARCH) \</span>
</pre>
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89
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<pre style="margin: 0;">-<span id="LC89" class="line" lang="plaintext"> --movedev interfaces usr/include \</span>
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90
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87
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="plaintext"> debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/lib/libncbi-vdb.so</span>
</pre>
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91
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="plaintext"> mv debian/libncbi-vdb-dev/usr/include/interfaces debian/libncbi-vdb-dev/usr/include/$(DEB_SOURCE)</span>
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<td class="diff-line-num old old_line" data-linenumber="92" 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">
92
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="plaintext"> # json-response.h and services-priv.h are needed by sra-sdk</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="93" 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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88
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="plaintext"> install -d debian/libncbi-vdb-dev/usr/include</span>
</pre>
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89
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="plaintext"> cp -a interfaces debian/libncbi-vdb-dev/usr/include/$(DEB_SOURCE)</span>
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90
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="plaintext"> # json-response.h and services-priv.h are needed by sra-sdk, but</span>
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91
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="plaintext"> # the latter shouldn't replace interfaces/vfs/services-priv.h.</span>
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93
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92
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="plaintext"> dh_install -plibncbi-vdb-dev libs/vfs/json-response.h usr/include/ncbi-vdb/vfs</span>
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94
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="plaintext"> dh_install -plibncbi-vdb-dev libs/vfs/services-priv.h usr/include/ncbi-vdb/vfs</span>
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95
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="plaintext"> d-shlibmove --commit \</span>
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96
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="plaintext"> --multiarch \</span>
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97
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<pre style="margin: 0;">-<span id="LC97" class="line" lang="plaintext"> --devunversioned \</span>
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98
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="plaintext"> --exclude-la \</span>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="plaintext"> cp libs/vfs/services-priv.h debian/libncbi-vdb-dev/usr/include/ncbi-vdb/vfs/services-priv-internal.h</span>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="plaintext"> d-shlibmove $(DSLMFLAGS) \</span>
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99
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95
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="plaintext"> --override s/libhdf5_serial[0-9]*-dev/libhdf5-dev/ \</span>
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100
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="plaintext"> --override s/libmbedx509-0-dev/libmbedtls-dev/ \</span>
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<td class="diff-line-num old_line" data-linenumber="101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
101
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96
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="plaintext"> debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/lib/libkdf5.so</span>
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102
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="plaintext"> d-shlibmove --commit \</span>
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<td class="diff-line-num old old_line" data-linenumber="103" 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">
103
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="plaintext"> --multiarch \</span>
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<td class="diff-line-num old old_line" data-linenumber="104" 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">
104
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<pre style="margin: 0;">-<span id="LC104" class="line" lang="plaintext"> --devunversioned \</span>
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105
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<pre style="margin: 0;">-<span id="LC105" class="line" lang="plaintext"> --exclude-la \</span>
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<td class="diff-line-num new old_line" data-linenumber="106" 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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97
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="plaintext"> d-shlibmove $(DSLMFLAGS) \</span>
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<td class="diff-line-num old_line" data-linenumber="106" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
106
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98
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="plaintext"> debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/lib/libncbi-wvdb.so</span>
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107
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<pre style="margin: 0;">-<span id="LC107" class="line" lang="plaintext"> d-shlibmove --commit \</span>
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<td class="diff-line-num old old_line" data-linenumber="108" 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">
108
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="plaintext"> --multiarch \</span>
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<td class="diff-line-num old old_line" data-linenumber="109" 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">
109
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<pre style="margin: 0;">-<span id="LC109" class="line" lang="plaintext"> --devunversioned \</span>
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<td class="diff-line-num old old_line" data-linenumber="110" 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">
110
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="plaintext"> --exclude-la \</span>
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<td class="diff-line-num new old_line" data-linenumber="111" 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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99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="plaintext"> d-shlibmove $(DSLMFLAGS) \</span>
</pre>
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111
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100
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="plaintext"> debian/tmp/usr/$(DEB_SOURCE)/$(OS)/gcc/*/dbg/lib/libvdb-sqlite.so</span>
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<td class="diff-line-num old_line" data-linenumber="112" 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">
112
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<td class="diff-line-num new_line" data-linenumber="101" 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">
101
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="plaintext"> find debian/lib* -name .gitignore -delete</span>
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<td class="diff-line-num old_line" data-linenumber="113" 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">
113
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102
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="plaintext"> # move schemata from development packages to library packages since these are used in executables</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="121" 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="110" 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">@@ -121,5 +110,5 @@ override_dh_auto_install:</td>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="plaintext"> mv $${schema} $(SCHEMADIR)/$${schemadir} ; \</span>
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<td class="diff-line-num old_line" data-linenumber="122" 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">
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="plaintext"> done</span>
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="plaintext">override_missing:</span>
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<td class="diff-line-num new old_line" data-linenumber="125" 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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<td class="diff-line-num new new_line" data-linenumber="113" 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="LC113" class="line" lang="plaintext">override_<span class="idiff left right">dh_</span>missing:</span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="plaintext"> dh_missing --fail-missing</span></pre>
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