File Changes for markd

v423_preview to v423_preview2 (2021-10-25 to 2021-11-01) v423

• .gitignore
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    7ac25ae99f0b09760b750e88afb5b8711380cfd5 Mon Oct 25 14:24:46 2021 -0700
    improve gitingore to make it easier to check for forgotten commits'
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    1288a4961387d06d4a5458ae493f7ad25f88e932 Fri Oct 29 14:59:22 2021 -0700
    add more to .gitignore
• src/hg/cgilib/gtexBoxplot.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgGene/rnaStructure.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgHubConnect/hgHubConnect.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgPhyloPlace/phyloPlace.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgPhyloPlace/runUsher.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgSession/backup.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgSession/hgSession.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgc/barChartClick.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgc/hgc.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgc/hgdpClick.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/hgc/rnaFoldClick.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/inc/partitionSort.h
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/lib/customAdjacency.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/lib/customFactory.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/lib/hgFind.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/makeDb/hgLoadMafFrames/hgLoadMafFrames.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/makeDb/hgLoadPsl/hgLoadPsl.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/hg/utils/hubClone/hubClone.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/inc/pipeline.h
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    902dd7f624e16a660ad582533f264b720ffcdb41 Thu Oct 28 12:07:31 2021 -0700
    don't create a process group on pipelineOpen, stay in the parent process group
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    86bb9f0fdcc838887b2d4a84154eea0e0f7b8631 Fri Oct 29 14:57:24 2021 -0700
    Revert "don't create a process group on pipelineOpen, stay in the parent process group" Another appoch is going to be tried to kill runaway process that requires the process group. This reverts commit 902dd7f624e16a660ad582533f264b720ffcdb41.
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/dnaMotif.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/linefile.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/mailViaPipe.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/md5.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/pipeline.c
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    902dd7f624e16a660ad582533f264b720ffcdb41 Thu Oct 28 12:07:31 2021 -0700
    don't create a process group on pipelineOpen, stay in the parent process group
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    86bb9f0fdcc838887b2d4a84154eea0e0f7b8631 Fri Oct 29 14:57:24 2021 -0700
    Revert "don't create a process group on pipelineOpen, stay in the parent process group" Another appoch is going to be tried to kill runaway process that requires the process group. This reverts commit 902dd7f624e16a660ad582533f264b720ffcdb41.
  • lines changed 45, context: html, text, full: html, text
    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/psGfx.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/tests/expected/pipelineExecError.parent.err
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    902dd7f624e16a660ad582533f264b720ffcdb41 Thu Oct 28 12:07:31 2021 -0700
    don't create a process group on pipelineOpen, stay in the parent process group
  • lines changed 1, context: html, text, full: html, text
    86bb9f0fdcc838887b2d4a84154eea0e0f7b8631 Fri Oct 29 14:57:24 2021 -0700
    Revert "don't create a process group on pipelineOpen, stay in the parent process group" Another appoch is going to be tried to kill runaway process that requires the process group. This reverts commit 902dd7f624e16a660ad582533f264b720ffcdb41.
• src/lib/tests/expected/pipelineTimeout.parent.err
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/tests/makefile
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/tests/pipelineTester.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs
• src/lib/textOut.c
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    6f949e90b1ba3de976455fbcf9da21897761d134 Fri Oct 29 16:11:58 2021 -0700
    add timeout option to pipeline to allow kill long-running pipelines, especially ones run from CGIs