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<h3>
Aaron M. Ucko pushed to branch master
at <a href="https://salsa.debian.org/med-team/ncbi-blastplus">Debian Med / ncbi-blastplus</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/ncbi-blastplus/-/commit/bcaf181b6d786ce85b77648643a5de52a23515ab">bcaf181b</a></strong>
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<span>by Aaron M. Ucko</span>
<i>at 2020-10-04T21:37:11-04:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">ncbi-blast+ 2.10.1-3: Fix makeblastdb V5 mode on mipsel.
debian/patches/tune_lmdb_defaults: Scale down slightly more on 32-bit
mips* (just mipsel in practice these days). The sizes at this point
are 640 MiB there, 750 MB on other 32-bit platforms, and 20 GB on
64-bit platforms.
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<h4>2 changed files:</h4>
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#42510a4326951c2b5cb7e75a90c32ffc1135b865">
debian/patches/tune_lmdb_defaults
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/ncbi-blastplus/-/commit/bcaf181b6d786ce85b77648643a5de52a23515ab#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">ncbi-blast+ (2.10.1-3) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * debian/patches/tune_lmdb_defaults: Scale down slightly more on 32-bit</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> mips* (just mipsel in practice these days). The sizes at this point</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> are 640 MiB there, 750 MB on other 32-bit platforms, and 20 GB on</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> 64-bit platforms.</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> -- Aaron M. Ucko <ucko@debian.org> Sun, 04 Oct 2020 21:37:04 -0400</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">ncbi-blast+ (2.10.1-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> * debian/patches/bm-6.4.0 (new): Update embedded copy of BitMagic to</span>
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<li id="42510a4326951c2b5cb7e75a90c32ffc1135b865">
<a href="https://salsa.debian.org/med-team/ncbi-blastplus/-/commit/bcaf181b6d786ce85b77648643a5de52a23515ab#42510a4326951c2b5cb7e75a90c32ffc1135b865"><strong>debian/patches/tune_lmdb_defaults</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/c++/include/objtools/blast/seqdb_writer/writedb_lmdb.hpp</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/c++/include/objtools/blast/seqdb_writer/writedb_lmdb.hpp</span></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="diff"><span class="p">@@ -48,6 +48,1<span class="idiff left right">1</span> @@</span> USING_SCOPE(objects);</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">@@ -48,6 +48,1<span class="idiff left right">3</span> @@</span> USING_SCOPE(objects);</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff"> BEGIN_NCBI_SCOPE</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="diff"> </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;">+#if NCBI_PLATFORM_BITS >= 64</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+# define NCBI_WRITEDB_DEFAULT_MAP_SIZE (20UL * 1000 * 1000 * 1000)</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#elif defined(__mips__)</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+# define NCBI_WRITEDB_DEFAULT_MAP_SIZE (640 * 1024 * 1024)</span></span>
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9
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#else</span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+# define NCBI_WRITEDB_DEFAULT_MAP_SIZE (750 * 1000 * 1000)</span></span>
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11
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#endif</span></span>
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12
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="diff"> </span>
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13
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15
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="diff"> /// This class supports creation of a string accession to integer OID</span>
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14
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="diff"> /// lmdb database</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="diff"><span class="p">@@ -59,7 +6<span class="idiff left right">4</span>,8 @@</span> public:</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="p">@@ -59,7 +6<span class="idiff left right">6</span>,8 @@</span> public:</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"> /// Constructor for LMDB write access</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="diff"> /// @param dbname Database name</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="22" 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">@@ -22,7 +24,7 @@</td>
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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"> // Destructor</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="diff"> ~CWriteDB_LMDB();</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="diff"><span class="p">@@ -130,7 +13<span class="idiff left right">6</span>,8 @@</span> public:</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="p">@@ -130,7 +13<span class="idiff left right">8</span>,8 @@</span> public:</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="diff"> /// Constructor for LMDB write access</span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="diff"> /// @param dbname Database name</span>
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