Commit a6edf740 authored by TomKellyGenetics's avatar TomKellyGenetics
Browse files

remove test data in github actions for disk space

parent 28840b30

test/run_tests_10x_gh_actions.sh

+2 −0
Original line number Original line Diff line number Diff line
@@ -12,6 +12,8 @@ rm -rf test/cellranger_reference/cellranger-tiny-ref/3.0.0 
make test/cellranger_reference/cellranger-tiny-ref reference

make test/cellranger_reference/cellranger-tiny-ref reference

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0





rm -rf  test/shared/dropseq-test/* test/shared/mappa-test/  test/shared/icell8-test/ test/shared/smartseq3-test/ test/shared/indrop-v3-test/



# reset barcodes for test

# reset barcodes for test

bash launch_universc.sh -t "10x" --setup

bash launch_universc.sh -t "10x" --setup

test/run_tests_10x_v2_gh_actions.sh

+2 −0
Original line number Original line Diff line number Diff line
@@ -12,6 +12,8 @@ rm -rf test/cellranger_reference/cellranger-tiny-ref/3.0.0 
make test/cellranger_reference/cellranger-tiny-ref reference

make test/cellranger_reference/cellranger-tiny-ref reference

rm -rf  test/cellranger_reference/cellranger-tiny-ref/3.0.0

rm -rf  test/cellranger_reference/cellranger-tiny-ref/3.0.0





rm -rf  test/shared/dropseq-test/* test/shared/mappa-test/  test/shared/icell8-test/ test/shared/smartseq3-test/ test/shared/indrop-v3-test/



# reset barcodes for test

# reset barcodes for test

bash launch_universc.sh -t "10x" --setup

bash launch_universc.sh -t "10x" --setup

test/run_tests_cellranger_gh_actions.sh

+2 −0
Original line number Original line Diff line number Diff line
@@ -12,6 +12,8 @@ rm -rf test/cellranger_reference/cellranger-tiny-ref/3.0.0 
make test/cellranger_reference/cellranger-tiny-ref reference

make test/cellranger_reference/cellranger-tiny-ref reference

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0





rm -rf  test/shared/dropseq-test/* test/shared/mappa-test/  test/shared/icell8-test/ test/shared/smartseq3-test/ test/shared/indrop-v3-test/



# reset barcodes for test

# reset barcodes for test

bash launch_universc.sh -t "10x" --setup

bash launch_universc.sh -t "10x" --setup

test/run_tests_dropseq_gh_actions.sh

+1 −1
Original line number Original line Diff line number Diff line
@@ -18,7 +18,7 @@ if [[ ! -f test/cellranger_reference/cellranger-tiny-ref/1.2.0/star/SA ]] && [[ 
    ln $(dirname $cellrangerpath)/cellranger-tiny-ref/1.2.0/star/SA test/cellranger_reference/cellranger-tiny-ref/1.2.0/star/SA

    ln $(dirname $cellrangerpath)/cellranger-tiny-ref/1.2.0/star/SA test/cellranger_reference/cellranger-tiny-ref/1.2.0/star/SA

fi

fi





rm -rf test/shared/dropseq-test/* test/shared/cellranger-tiny-fastq/* test/shared/mappa-test/

rm -rf test/shared/dropseq-test/* test/shared/cellranger-tiny-fastq/* test/shared/mappa-test/ test/shared/smartseq3-test/ test/shared/indrop-v3-test/

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0





# compress all input files

# compress all input files

test/run_tests_icell8_gh_actions.sh

+2 −1
Original line number Original line Diff line number Diff line
@@ -18,7 +18,8 @@ if [[ ! -f test/cellranger_reference/cellranger-tiny-ref/1.2.0/star/SA ]] && [[ 
    ln $(dirname $cellrangerpath)/cellranger-tiny-ref/1.2.0/star/SA test/cellranger_reference/cellranger-tiny-ref/1.2.0/star/SA

    ln $(dirname $cellrangerpath)/cellranger-tiny-ref/1.2.0/star/SA test/cellranger_reference/cellranger-tiny-ref/1.2.0/star/SA

fi

fi





rm -rf test/shared/dropseq-test/* test/shared/cellranger-tiny-fastq/* test/shared/mappa-test/

rm -rf test/shared/dropseq-test/* test/shared/cellranger-tiny-fastq/* test/shared/mappa-test/  test/shared/smartseq3-test/ test/shared/indrop-v3-test/



rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0

rm -rf  test/cellranger_reference/cellranger-tiny-ref/1.2.0

unpigz -f test/shared/icell8-test/72618_KU812*fastq.gz

unpigz -f test/shared/icell8-test/72618_KU812*fastq.gz

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