| Previous changeset 0:9c61692acd7b (2016-11-14) Next changeset 2:ec31e4883c99 (2016-11-14) |
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Commit message:
Uploaded |
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modified:
scaffhunter/locOnRef.xml |
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added:
scaffhunter/tool-data/scaffhunter.loc scaffhunter/tool_data_table_conf.xml.sample scaffhunter/tool_dependencies.xml |
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| diff -r 9c61692acd7b -r b1807ab520a1 scaffhunter/locOnRef.xml --- a/scaffhunter/locOnRef.xml Mon Nov 14 07:39:42 2016 -0500 +++ b/scaffhunter/locOnRef.xml Mon Nov 14 08:01:49 2016 -0500 |
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| @@ -1,9 +1,9 @@ <tool id="locOnRef" name="locOnRef" version="0.1"> <description> : Locate markers having uniq position on a reference </description> <requirements> - <requirement type="binary">blastn</requirement> - <requirement type="binary">bwa</requirement> - <requirement type="binary">bowtie2</requirement> + <requirement type="package" version="0.7.7">bwa</requirement> + <requirement type="package" version="2.2.6">bowtie2</requirement> + <requirement type="package" version="2.2.31">blast+</requirement> </requirements> <stdio> <exit_code range="1:" /> |
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| diff -r 9c61692acd7b -r b1807ab520a1 scaffhunter/tool-data/scaffhunter.loc --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scaffhunter/tool-data/scaffhunter.loc Mon Nov 14 08:01:49 2016 -0500 |
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| @@ -0,0 +1,1 @@ +sample_sh Sample for Scaffhunter /bank/musa_acuminata/sample/scaffolds.fasta |
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| diff -r 9c61692acd7b -r b1807ab520a1 scaffhunter/tool_data_table_conf.xml.sample --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scaffhunter/tool_data_table_conf.xml.sample Mon Nov 14 08:01:49 2016 -0500 |
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| @@ -0,0 +1,7 @@ +<tables> + <!-- Locations of scaffhunter file --> + <table name="scaffhunter" comment_char="#"> + <columns>value, dbkey, path</columns> + <file path="tool-data/scaffhunter.loc" /> + </table> +</tables> \ No newline at end of file |
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| diff -r 9c61692acd7b -r b1807ab520a1 scaffhunter/tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scaffhunter/tool_dependencies.xml Mon Nov 14 08:01:49 2016 -0500 |
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| @@ -0,0 +1,12 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="bwa" version="0.7.7"> + <repository changeset_revision="def70e393020" name="package_bwa_0_7_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="blast+" version="2.2.31"> + <repository changeset_revision="e36f75574aec" name="package_blast_plus_2_2_31" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + </package> + <package name="bowtie2" version="2.2.6"> + <repository changeset_revision="0d9cd7487cc9" name="package_bowtie_2_2_6" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + </package> +</tool_dependency> |