Moving QC functionalty into repository so we can run outside of the pipeline.

[htsworkflow.git] / htswanalysis / scripts / LibrariesMakefile

diff --git a/htswanalysis/scripts/LibrariesMakefile b/htswanalysis/scripts/LibrariesMakefile
index 4a779dd1f3105e7c8bc797a17d06a588927289e8..0305e8fbb241a8e5d690ed28934e5d2f02c897ed 100644 (file)
--- a/htswanalysis/scripts/LibrariesMakefile
+++ b/htswanalysis/scripts/LibrariesMakefile
@@ -54,7 +54,7 @@ $(DATA_DIR)/qPCR_summary.txt: $(QPCR_FILES)
        cat $@ | sort -k 2,1 -g -r > t && mv t $@;
 
 $(DATA_DIR)/LibraryInfo.xml: $(COUNT_FILES) $(CMPLX_FILES)
-       $(ROOT_DIR)/scripts/CollectLibraries.pm $(DATA_DIR) > $@;
+       $(ROOT_DIR)/scripts/CollectLibraries.pm `ls $(DATA_DIR)/Flowcells/**/*.align*.txt` > $@;
        $(ROOT_DIR)/scripts/RecompileLibraries.pm $@ $(DATA_DIR)
 
 $(DATA_DIR)/SequencingSummary.html: $(DATA_DIR)/LibraryInfo.xml