| Previous changeset 8:5543c3d33e26 (2014-01-16) Next changeset 10:b6e3849293b1 (2014-12-19) |
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Commit message:
Fix issue reported by Nicola Soranzo: https://trello.com/c/GvypU9T7. Put quotes around filenames. |
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modified:
cuffmerge_wrapper.xml |
| b |
| diff -r 5543c3d33e26 -r 424d49834830 cuffmerge_wrapper.xml --- a/cuffmerge_wrapper.xml Thu Jan 16 13:14:19 2014 -0500 +++ b/cuffmerge_wrapper.xml Mon Jan 20 11:09:02 2014 -0500 |
| b |
| @@ -11,26 +11,26 @@ ## Use annotation reference? #if $annotation.use_ref_annotation == "Yes": - -g $annotation.reference_annotation + -g "${annotation.reference_annotation}" #end if ## Use sequence data? #if $seq_data.use_seq_data == "Yes": - -s + -s #if $seq_data.seq_source.index_source == "history": - --ref_file=$seq_data.seq_source.ref_file + --ref_file="${seq_data.seq_source.ref_file}" #else: - --index=${bias_correction.seq_source.index.fields.path} + --index="${seq_data.seq_source.index.fields.path}" #end if #end if ## Outputs. - --merged-transcripts=${merged_transcripts} + --merged-transcripts="${merged_transcripts}" ## Inputs. - ${first_input} + "${first_input}" #for $input_file in $input_files: - ${input_file.additional_input} + "${input_file.additional_input}" #end for </command> |