Mercurial > repos > bgruening > deeptools
changeset 3:9441b4e5d2d6 draft
Uploaded
| author | bgruening |
|---|---|
| date | Sat, 16 Nov 2013 07:50:32 -0500 |
| parents | b5da81864541 |
| children | ac935c35437a |
| files | bamCorrelate.xml tool_dependencies.xml |
| diffstat | 2 files changed, 10 insertions(+), 8 deletions(-) [+] |
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--- a/bamCorrelate.xml Fri Nov 15 11:02:32 2013 -0500 +++ b/bamCorrelate.xml Sat Nov 16 07:50:32 2013 -0500 @@ -15,6 +15,15 @@ bamCorrelate + #if $mode.modeOpt == "bins": + bins + --binSize '$mode.binSize' + --numberOfSamples '$mode.numberOfSamples' + #else: + BED-file + --BED $mode.region_file + #end if + @THREADS@ --bamfiles #echo " ".join($files) @@ -31,13 +40,6 @@ --outFileCorMatrix '$outFileCorMatrix' #end if - #if $mode.modeOpt == "bins": - --binSize '$mode.binSize' - --numberOfSamples '$mode.numberOfSamples' - #else: - --BED $mode.region_file - #end if - ## options available in both modes #if $mode.advancedOpt.showAdvancedOpt == "yes":
--- a/tool_dependencies.xml Fri Nov 15 11:02:32 2013 -0500 +++ b/tool_dependencies.xml Sat Nov 16 07:50:32 2013 -0500 @@ -73,7 +73,7 @@ <action type="set_environment"> <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> - <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> + <environment_variable action="prepand_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable> <!-- disable the config file of deepTools --> <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable> </action>