Mercurial > repos > devteam > cuffdiff
changeset 11:5ce5197de50c draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/cuffdiff commit 220e70acb66016873732b193b3ac20ae48083f0b-dirty
| author | devteam |
|---|---|
| date | Wed, 16 Sep 2015 09:39:31 -0400 |
| parents | 4e6f043995ff |
| children | 0f32ad418df8 |
| files | cuff_macros.xml cuffdiff_wrapper.xml tool_dependencies.xml |
| diffstat | 3 files changed, 7 insertions(+), 7 deletions(-) [+] |
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--- a/cuff_macros.xml Wed Jun 03 15:04:19 2015 -0400 +++ b/cuff_macros.xml Wed Sep 16 09:39:31 2015 -0400 @@ -10,8 +10,8 @@ <stdio> <exit_code range="1:" /> <exit_code range=":-1" /> - <regex match="Error:" /> - <regex match="Exception:" /> + <regex match="Error" /> + <regex match="Exception" /> </stdio> </xml> <xml name="condition_inputs"> @@ -88,4 +88,4 @@ #end for </token> <token name="@HAS_MULTIPLE_INPUTS@">getattr(inputs, "__len__", [].__len__)() >= 2</token> -</macros> \ No newline at end of file +</macros>
--- a/cuffdiff_wrapper.xml Wed Jun 03 15:04:19 2015 -0400 +++ b/cuffdiff_wrapper.xml Wed Sep 16 09:39:31 2015 -0400 @@ -1,4 +1,4 @@ -<tool id="cuffdiff" name="Cuffdiff" version="@VERSION@.2"> +<tool id="cuffdiff" name="Cuffdiff" version="@VERSION@.3"> <description>find significant changes in transcript expression, splicing, and promoter use</description> <requirements> <requirement type="set_environment">CUFFDIFF_SCRIPT_PATH</requirement> @@ -203,10 +203,10 @@ <data format="tabular" name="tss_groups_read_group" label="${tool.name} on ${on_string}: TSS groups read group tracking" from_work_dir="tss_groups.read_group_tracking" > <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> </data> - <data format="text" name="read_group_info" label="${tool.name} on ${on_string}: read group info" from_work_dir="read_groups.info" > + <data format="txt" name="read_group_info" label="${tool.name} on ${on_string}: read group info" from_work_dir="read_groups.info" > <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> </data> - <data format="text" name="run_info" label="${tool.name} on ${on_string}: run info" from_work_dir="run.info" > + <data format="txt" name="run_info" label="${tool.name} on ${on_string}: run info" from_work_dir="run.info" > <filter>(include_read_group_files == 'Yes') and not omit_tabular_output</filter> </data> <!-- Standard datasets. -->
--- a/tool_dependencies.xml Wed Jun 03 15:04:19 2015 -0400 +++ b/tool_dependencies.xml Wed Sep 16 09:39:31 2015 -0400 @@ -7,6 +7,6 @@ <repository changeset_revision="899067a260d1" name="package_cufflinks_2_2_1" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="cummeRbund" version="2.8.2"> - <repository changeset_revision="f18bcdb8c6c5" name="package_cummerbund_2_8_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> + <repository changeset_revision="13c270433440" name="package_cummerbund_2_8_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> </tool_dependency>