1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/05a172868303/ changeset: 05a172868303 user: jgoecks date: 2012-09-18 23:11:18 summary: Tophat2 wrapper fixes. Thanks to Jim Johnson and Lance Parsons. affected #: 1 file diff -r 0cf3b64e80777c45425a57f4f69d806df839fcf4 -r 05a1728683032985f7feccc007b25c083d263c9b tools/ngs_rna/tophat2_wrapper.xml --- a/tools/ngs_rna/tophat2_wrapper.xml +++ b/tools/ngs_rna/tophat2_wrapper.xml @@ -3,6 +3,8 @@ <description>Gapped-read mapper for RNA-seq data</description><version_command>tophat2 --version</version_command><requirements> + <requirement type="package">samtools</requirement> + <requirement type="package">bowtie2</requirement><requirement type="package">tophat2</requirement></requirements><command interpreter="python"> @@ -297,7 +299,7 @@ <outputs><data format="tabular" name="fusions" label="${tool.name} on ${on_string}: fusions" from_work_dir="tophat_out/fusions.out"> - <filter>(params['fusion_search']['do_search'] == 'Yes')</filter> + <filter>(params['settingsType'] == 'full' and params['fusion_search']['do_search'] == 'Yes')</filter></data><data format="bed" name="insertions" label="${tool.name} on ${on_string}: insertions" from_work_dir="tophat_out/insertions.bed"><actions> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.