File Changes for hiram

v476_base to v477_preview (2025-01-13 to 2025-01-21) v477

• src/hg/affyGnf/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/gar/asr.cgi.pl
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    4888af47a6dceb9a40e20276c1acf861edf02479 Tue Jan 14 07:02:55 2025 -0800
    more useful to have the mail subject say assembly request rather than asr request refs #32596
• src/hg/lib/straw/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/makeDb/doc/asmHubs/master.run.list
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    47a1923ca3817900bbd90d07d9a073719a0a7f32 Tue Jan 14 14:35:05 2025 -0800
    adding a couple per user request refs #29545
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    d2353c8c3ff43dc95f0fb2a13e5d0592c7521a25 Mon Jan 20 09:28:40 2025 -0800
    adding a couple per user request refs #29545
• src/hg/makeDb/doc/asmHubs/verifyOnDownload.sh
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    0bb1aded8773d1762002ee556834f582252e0711 Tue Jan 14 16:08:12 2025 -0800
    legacy reached a new low with a virus no redmine
• src/hg/makeDb/doc/legacyAsmHub/legacy.clade.txt
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    47a1923ca3817900bbd90d07d9a073719a0a7f32 Tue Jan 14 14:35:05 2025 -0800
    adding a couple per user request refs #29545
• src/hg/makeDb/doc/legacyAsmHub/legacy.orderList.tsv
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    47a1923ca3817900bbd90d07d9a073719a0a7f32 Tue Jan 14 14:35:05 2025 -0800
    adding a couple per user request refs #29545
• src/hg/makeDb/doc/mammalsAsmHub/mammals.orderList.tsv
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    47a1923ca3817900bbd90d07d9a073719a0a7f32 Tue Jan 14 14:35:05 2025 -0800
    adding a couple per user request refs #29545
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    d2353c8c3ff43dc95f0fb2a13e5d0592c7521a25 Mon Jan 20 09:28:40 2025 -0800
    adding a couple per user request refs #29545
• src/hg/makeDb/doc/viralAsmHub/viral.orderList.tsv
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    47a1923ca3817900bbd90d07d9a073719a0a7f32 Tue Jan 14 14:35:05 2025 -0800
    adding a couple per user request refs #29545
• src/hg/utils/agpCondense/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/automation/doCpgIslands.pl
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    160145e7459ad9c3252fa47ddff8c1db634688a0 Tue Jan 14 07:07:44 2025 -0800
    eliminate duplicate declaration of $fh no redmine
• src/hg/utils/automation/doTandemDup.pl
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    a20a64637b2a8bddd07aa4071beb839daa464230 Tue Jan 14 10:53:07 2025 -0800
    using the faster python kmerPrint.py no redmine
• src/hg/utils/automation/kmerPrint.py
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    d46e25fbafa02b136e9cdbb6eafcbf01583d2a8a Tue Jan 14 10:51:47 2025 -0800
    dramatically faster than the perl equivalent no redmine
• src/hg/utils/automation/makefile
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    a3a313b3fa4aa9c77d0b9827f8721ef57990bebd Tue Jan 14 12:24:02 2025 -0800
    no using kmerPrint.py in place of kmerPrint.pl no redmine
• src/hg/utils/bedExtendRanges/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/bedMergeExpData/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/bedMergeOverlappingBlocks/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/bedRandom/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/blatServersCheck/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/cageSingleTrack/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/checkUrlsInTable/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/coloredExonToBed/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/findCutters/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/fiveCToBed/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/geoMirrorNode/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/gff3ToGenePred/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/gff3ToPsl/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/gffToBed/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/gtfToGenePred/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/hubCheck/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/liftUpBedFromTable/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/makeTableList/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/makeTrackIndex/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/mdbQuery/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/mutationClassifier/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/overlapSelect/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/pslLiftSubrangeBlat/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/randFrag/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/refSeqGet/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/repeatSelect/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/rgdGeneXref2/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/sqlPerf/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/hg/utils/wigAsciiAverageOverBed/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/dataSim/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/gensub2/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/para/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraHub/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraHubStop/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraNode/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraNodeStart/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraNodeStatus/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraNodeStop/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/paraTestJob/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/parasol/parasol/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048
• src/tracks/makefile
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    3844728d1f5262afe91c7dfdd7187cb46f8fa568 Mon Jan 13 14:05:12 2025 -0800
    eliminate the duplication of the -lm library refs #35048