Loading test/run_tests.sh +1 −1 Original line number Diff line number Diff line Loading @@ -22,7 +22,7 @@ cellranger count --id="tiny-count-v3" \ --transcriptome="/cellranger-3.0.2.9001/cellranger-tiny-ref/3.0.0" cellranger count --id="tiny-count-v2" \ --fastqs="/cellranger-3.0.2.9001/cellranger-tiny-fastq/1.2.0/" --sample="tinygex" \ --fastqs="/cellranger-3.0.2.9001/cellranger-tiny-fastq/1.2.0/" --sample="" --chemistry="threeprime" \ --transcriptome="/cellranger-3.0.2.9001/cellranger-tiny-ref/1.2.0" # call convert on 10x with multiple lanes Loading test/run_tests_10x.sh +6 −6 Original line number Diff line number Diff line Loading @@ -3,7 +3,7 @@ # run tests in home directory (writeable) #cd ~ export PATH=/home/tom/local/bin/cellranger-3.1.0:$PATH #export PATH=/home/tom/local/bin/cellranger-3.1.0:$PATH cellrangerversion=`cellranger count --version | head -n 2 | tail -n 1 | cut -f2 -d'(' | cut -f1 -d')'` cellrangerpath=`which cellranger` Loading @@ -26,9 +26,9 @@ cellranger count --id="tiny-count-v3" \ --fastqs="test/shared/cellranger-tiny-fastq/3.0.0/" --sample="tinygex" \ --transcriptome="test/cellranger_reference/cellranger-tiny-ref/3.0.0" #cellranger count --id="tiny-count-v2" \ # --fastqs="test/shared/cellranger-tiny-fastq/1.2.0/" --sample="tinygex" \ # --transcriptome="test/cellranger_reference/cellranger-tiny-ref/1.2.0" cellranger count --id="tiny-count-v2" \ --fastqs="test/shared/cellranger-tiny-fastq/1.2.0/" --sample="" --chemistry="threeprime" \ --transcriptome="test/cellranger_reference/cellranger-tiny-ref/1.2.0" # call convert on 10x with multiple lanes bash launch_universc.sh --id "test-10x-v3" --technology "10x" \ Loading @@ -38,8 +38,8 @@ bash launch_universc.sh --id "test-10x-v3" --technology "10x" \ #bash launch_universc.sh --id "test-10x-v2" --technology "10x" \ # --reference "test/cellranger_reference/cellranger-tiny-ref/1.2.0" \ # --file "test/shared/cellranger-tiny-fastq/1.2.0/tinygex_S1_L001" \ # "test/shared/cellranger-tiny-fastq/1.2.0/tinygex_S1_L002" # --file "test/shared/cellranger-tiny-fastq/1.2.0/" \ # "test/shared/cellranger-tiny-fastq/1.2.0/" # compress all input files gzip -f test/shared/cellranger-tiny-fastq/3.0.0/*fastq Loading
test/run_tests.sh +1 −1 Original line number Diff line number Diff line Loading @@ -22,7 +22,7 @@ cellranger count --id="tiny-count-v3" \ --transcriptome="/cellranger-3.0.2.9001/cellranger-tiny-ref/3.0.0" cellranger count --id="tiny-count-v2" \ --fastqs="/cellranger-3.0.2.9001/cellranger-tiny-fastq/1.2.0/" --sample="tinygex" \ --fastqs="/cellranger-3.0.2.9001/cellranger-tiny-fastq/1.2.0/" --sample="" --chemistry="threeprime" \ --transcriptome="/cellranger-3.0.2.9001/cellranger-tiny-ref/1.2.0" # call convert on 10x with multiple lanes Loading
test/run_tests_10x.sh +6 −6 Original line number Diff line number Diff line Loading @@ -3,7 +3,7 @@ # run tests in home directory (writeable) #cd ~ export PATH=/home/tom/local/bin/cellranger-3.1.0:$PATH #export PATH=/home/tom/local/bin/cellranger-3.1.0:$PATH cellrangerversion=`cellranger count --version | head -n 2 | tail -n 1 | cut -f2 -d'(' | cut -f1 -d')'` cellrangerpath=`which cellranger` Loading @@ -26,9 +26,9 @@ cellranger count --id="tiny-count-v3" \ --fastqs="test/shared/cellranger-tiny-fastq/3.0.0/" --sample="tinygex" \ --transcriptome="test/cellranger_reference/cellranger-tiny-ref/3.0.0" #cellranger count --id="tiny-count-v2" \ # --fastqs="test/shared/cellranger-tiny-fastq/1.2.0/" --sample="tinygex" \ # --transcriptome="test/cellranger_reference/cellranger-tiny-ref/1.2.0" cellranger count --id="tiny-count-v2" \ --fastqs="test/shared/cellranger-tiny-fastq/1.2.0/" --sample="" --chemistry="threeprime" \ --transcriptome="test/cellranger_reference/cellranger-tiny-ref/1.2.0" # call convert on 10x with multiple lanes bash launch_universc.sh --id "test-10x-v3" --technology "10x" \ Loading @@ -38,8 +38,8 @@ bash launch_universc.sh --id "test-10x-v3" --technology "10x" \ #bash launch_universc.sh --id "test-10x-v2" --technology "10x" \ # --reference "test/cellranger_reference/cellranger-tiny-ref/1.2.0" \ # --file "test/shared/cellranger-tiny-fastq/1.2.0/tinygex_S1_L001" \ # "test/shared/cellranger-tiny-fastq/1.2.0/tinygex_S1_L002" # --file "test/shared/cellranger-tiny-fastq/1.2.0/" \ # "test/shared/cellranger-tiny-fastq/1.2.0/" # compress all input files gzip -f test/shared/cellranger-tiny-fastq/3.0.0/*fastq
