| Previous changeset 16:227f9d3f0e32 (2014-04-11) Next changeset 18:087e32034c95 (2014-09-26) |
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Commit message:
Fixed test output, added missing pysam dependency |
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modified:
htseq-count.xml test-data/htseq-test-paired_othercounts.tsv test-data/htseq-test_othercounts.tsv tool_dependencies.xml |
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| diff -r 227f9d3f0e32 -r d5edaf8dc974 htseq-count.xml --- a/htseq-count.xml Fri Apr 11 15:05:28 2014 -0400 +++ b/htseq-count.xml Fri Apr 11 16:01:54 2014 -0400 |
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| @@ -1,10 +1,11 @@ -<tool id="htseq_count" name="htseq-count" version="0.4"> +<tool id="htseq_count" name="htseq-count" version="0.4.1"> <description> - Count aligned reads in a BAM file that overlap features in a GFF file</description> <version_command>htseq-count -h | grep version | sed 's/^\(.*\)*\(version .*\)\./\2/'</version_command> <requirements> <requirement type="package" version="1.7.1">numpy</requirement> <requirement type="package" version="0.6.1">htseq</requirement> <requirement type="package" version="0.1.19">samtools</requirement> + <requirement type="package" version="0.7.7">pysam</requirement> </requirements> <command> ##set up input files |
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| diff -r 227f9d3f0e32 -r d5edaf8dc974 test-data/htseq-test-paired_othercounts.tsv --- a/test-data/htseq-test-paired_othercounts.tsv Fri Apr 11 15:05:28 2014 -0400 +++ b/test-data/htseq-test-paired_othercounts.tsv Fri Apr 11 16:01:54 2014 -0400 |
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| @@ -1,5 +1,5 @@ -no_feature 533 -ambiguous 1 -too_low_aQual 0 -not_aligned 0 -alignment_not_unique 0 +_feature 755 +__ambiguous 0 +__too_low_aQual 96 +__not_aligned 0 +__alignment_not_unique 0 |
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| diff -r 227f9d3f0e32 -r d5edaf8dc974 test-data/htseq-test_othercounts.tsv --- a/test-data/htseq-test_othercounts.tsv Fri Apr 11 15:05:28 2014 -0400 +++ b/test-data/htseq-test_othercounts.tsv Fri Apr 11 16:01:54 2014 -0400 |
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| @@ -1,5 +1,5 @@ -no_feature 19 -ambiguous 0 -too_low_aQual 0 -not_aligned 1336 -alignment_not_unique 0 +__no_feature 19 +__ambiguous 0 +__too_low_aQual 0 +__not_aligned 1336 +__alignment_not_unique 0 |
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| diff -r 227f9d3f0e32 -r d5edaf8dc974 tool_dependencies.xml --- a/tool_dependencies.xml Fri Apr 11 15:05:28 2014 -0400 +++ b/tool_dependencies.xml Fri Apr 11 16:01:54 2014 -0400 |
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| @@ -9,6 +9,10 @@ <repository changeset_revision="1ef76f8d8e52" name="package_samtools_0_1_19" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> + <package name="pysam" version="0.7.7"> + <repository changeset_revision="b62538c8c664" name="package_pysam_0_7_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="htseq" version="0.6.1"> <install version="1.0"> <actions> |