Mercurial > repos > greg > ideas
changeset 7:00b59afd9fbd draft
Uploaded
| author | greg |
|---|---|
| date | Thu, 10 Aug 2017 12:50:54 -0400 |
| parents | 8c6de654737b |
| children | 129b880ba2ea |
| files | ideas.xml |
| diffstat | 1 files changed, 7 insertions(+), 6 deletions(-) [+] |
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--- a/ideas.xml Thu Aug 10 12:46:17 2017 -0400 +++ b/ideas.xml Thu Aug 10 12:50:54 2017 -0400 @@ -9,8 +9,10 @@ </requirements> <command><![CDATA[ #import os -#set tmp_dir = ($os.path.join($os.getcwd(), 'tmp') +#set tmp_dir = $os.path.join($os.getcwd(), 'tmp') +#set prep_output_dir = $os.path.join($os.getcwd(), 'prep_output') mkdir -p $tmp_dir && +mkdir -p $prep_output_dir && ############################################## ## Create the config file and prepare the data ############################################## @@ -67,7 +69,6 @@ ############################################## ## Run IDEAS on the R matrix ############################################## -&& mkdir -p output && ideas '$build_config_file' #set smoother_annotation = $smoother_annotation_cond.smoother_annotation @@ -120,10 +121,10 @@ -maxerr $set_max_standard_dev_cond.max_standard_dev #end if -thread \${GALAXY_SLOTS:-4} --o output -&& mv output/*.state $output_state -&& mv output/*.para $output_para -&& mv output/*cluster $output_cluster +-o $prep_output_dir +&& mv $prep_output_dir/*.state $output_state +&& mv $prep_output_dir/*.para $output_para +&& mv $prep_output_dir/*cluster $output_cluster ]]></command> <configfiles> <configfile name="build_config_file"><![CDATA[#for $input_items in $input_type_cond.input_repeat: