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Don't filter TARGET variants for MAF by default, the missingness filt… #1139

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Don't filter TARGET variants for MAF by default, the missingness filt…

Don't filter TARGET variants for MAF by default, the missingness filt… #1139

Run time

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Job Run time
preload_ancestry / preload_reference
15s
preload_docker / docker
2m 18s
preload_singularity / singularity
51s
ancestry_singularity / docker
0s
ancestry_vcf_singularity / singularity
7m 28s
ancestry_singularity / singularity
7m 56s
ancestry_vcf_singularity / docker
0s
standard_test_singularity / docker
0s
standard_test_singularity / singularity (test, singularity, 23.10.0)
1m 18s
standard_test_singularity / singularity (test, singularity, latest)
1m 15s
pytest_workflow_singularity (pgscatalog test bad accession) / docker
0s
pytest_workflow_singularity (pgscatalog test bad accession) / singularity
51s
pytest_workflow_singularity (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
0s
pytest_workflow_singularity (pgscatalog test --efo_trait --pgp_id and --pgs_id) / singularity
59s
pytest_workflow_singularity (pgscatalog test good and bad accessions GRCh38) / docker
0s
pytest_workflow_singularity (pgscatalog test good and bad accessions GRCh38) / singularity
54s
pytest_workflow_singularity (pgscatalog test --pgs_id) / docker
0s
pytest_workflow_singularity (pgscatalog test --pgs_id) / singularity
1m 17s
pytest_workflow_singularity (plink2 testmultiscore) / docker
0s
pytest_workflow_singularity (plink2 testmultiscorefail) / docker
0s
pytest_workflow_singularity (plink2 testmultiscore) / singularity
46s
pytest_workflow_singularity (plink2 testmultiscorefail) / singularity
44s
pytest_workflow_singularity (plink2 testrelabelbim) / docker
0s
pytest_workflow_singularity (plink2 testrelabelbim) / singularity
47s
pytest_workflow_singularity (plink2 testrelabelpvar) / singularity
1m 6s
pytest_workflow_singularity (plink2 testrelabelpvar) / docker
0s
pytest_workflow_singularity (plink2 testscore) / docker
0s
pytest_workflow_singularity (plink2 testscore) / singularity
46s
pytest_workflow_singularity (plink2 testsmallmultiscore) / docker
0s
pytest_workflow_singularity (plink2 testsmallmultiscore) / singularity
47s
pytest_workflow_singularity (plink2 testsmallscore) / docker
0s
pytest_workflow_singularity (plink2 testsmallscore) / singularity
1m 3s
pytest_workflow_singularity (plink2 vcf) / docker
0s
pytest_workflow_singularity (plink2 vcf) / singularity
47s
pytest_workflow_singularity (test apply score subworkflow) / singularity
1m 34s
pytest_workflow_singularity (test combine scorefiles module) / singularity
2m 36s
pytest_workflow_singularity (test apply score subworkflow) / docker
0s
pytest_workflow_singularity (test combine scorefiles module) / docker
0s
pytest_workflow_singularity (test input check subworkflow with PGS catalog API) / singularity
1m 30s
pytest_workflow_singularity (test input check subworkflow with PGS catalog API) / docker
0s
pytest_workflow_singularity (test input check subworkflow with PGS catalog API and whitespace) / docker
0s
pytest_workflow_singularity (test input check subworkflow with PGS catalog API and whitespace) / singularity
1m 0s
pytest_workflow_singularity (test input check subworkflow with liftover 38to37) / docker
0s
pytest_workflow_singularity (test input check subworkflow with liftover 38to37) / singularity
1m 8s
pytest_workflow_singularity (test input check subworkflow with liftover 37to38) / docker
0s
pytest_workflow_singularity (test input check subworkflow with liftover 37to38) / singularity
56s
pytest_workflow_singularity (test input check subworkflow) / docker
0s
pytest_workflow_singularity (test input check subworkflow) / singularity
56s
pytest_workflow_singularity (test make compatible subworkflow with vcf) / singularity
1m 10s
pytest_workflow_singularity (test make compatible subworkflow with vcf) / docker
0s
pytest_workflow_singularity (test make compatible subworkflow with pfile) / docker
0s
pytest_workflow_singularity (test make compatible subworkflow with pfile) / singularity
57s
pytest_workflow_singularity (test make compatible subworkflow with bfile) / docker
0s
pytest_workflow_singularity (test make compatible subworkflow with bfile) / singularity
1m 14s
pytest_workflow_singularity (test match combine module) / docker
0s
pytest_workflow_singularity (test match combine module) / singularity
1m 18s
pytest_workflow_singularity (test match module) / docker
0s
pytest_workflow_singularity (test perfect apply score) / singularity
1m 18s
pytest_workflow_singularity (test match module) / singularity
1m 10s
pytest_workflow_singularity (test perfect apply score) / docker
0s
standard_test_docker / docker (test, docker, 23.10.0)
1m 50s
standard_test_docker / docker (test, docker, latest)
1m 58s
standard_test_docker / singularity
0s
ancestry_docker / docker
7m 50s
ancestry_vcf_docker / docker
9m 8s
ancestry_vcf_docker / singularity
0s
ancestry_docker / singularity
0s
pytest_workflow_docker (pgscatalog test bad accession) / docker
1m 58s
pytest_workflow_docker (pgscatalog test bad accession) / singularity
0s
pytest_workflow_docker (pgscatalog test --efo_trait --pgp_id and --pgs_id) / docker
1m 59s
pytest_workflow_docker (pgscatalog test --efo_trait --pgp_id and --pgs_id) / singularity
0s
pytest_workflow_docker (pgscatalog test good and bad accessions GRCh38) / docker
1m 54s
pytest_workflow_docker (pgscatalog test good and bad accessions GRCh38) / singularity
0s
pytest_workflow_docker (pgscatalog test --pgs_id) / docker
1m 47s
pytest_workflow_docker (pgscatalog test --pgs_id) / singularity
0s
pytest_workflow_docker (plink2 testmultiscore) / docker
2m 2s
pytest_workflow_docker (plink2 testmultiscore) / singularity
0s
pytest_workflow_docker (plink2 testmultiscorefail) / docker
1m 52s
pytest_workflow_docker (plink2 testmultiscorefail) / singularity
0s
pytest_workflow_docker (plink2 testrelabelbim) / singularity
0s
pytest_workflow_docker (plink2 testrelabelbim) / docker
1m 38s
pytest_workflow_docker (plink2 testrelabelpvar) / docker
2m 0s
pytest_workflow_docker (plink2 testrelabelpvar) / singularity
0s
pytest_workflow_docker (plink2 testscore) / docker
1m 42s
pytest_workflow_docker (plink2 testscore) / singularity
0s
pytest_workflow_docker (plink2 testsmallmultiscore) / docker
1m 46s
pytest_workflow_docker (plink2 testsmallmultiscore) / singularity
0s
pytest_workflow_docker (plink2 testsmallscore) / docker
1m 47s
pytest_workflow_docker (plink2 testsmallscore) / singularity
0s
pytest_workflow_docker (plink2 vcf) / docker
1m 59s
pytest_workflow_docker (plink2 vcf) / singularity
0s
pytest_workflow_docker (test apply score subworkflow) / docker
2m 18s
pytest_workflow_docker (test combine scorefiles module) / docker
3m 22s
pytest_workflow_docker (test apply score subworkflow) / singularity
0s
pytest_workflow_docker (test combine scorefiles module) / singularity
0s
pytest_workflow_docker (test input check subworkflow with PGS catalog API) / docker
2m 14s
pytest_workflow_docker (test input check subworkflow with PGS catalog API) / singularity
0s
pytest_workflow_docker (test input check subworkflow with PGS catalog API and whitespace) / docker
1m 56s
pytest_workflow_docker (test input check subworkflow with PGS catalog API and whitespace) / singularity
0s
pytest_workflow_docker (test input check subworkflow with liftover 38to37) / docker
2m 6s
pytest_workflow_docker (test input check subworkflow with liftover 38to37) / singularity
0s
pytest_workflow_docker (test input check subworkflow with liftover 37to38) / docker
1m 51s
pytest_workflow_docker (test input check subworkflow with liftover 37to38) / singularity
0s
pytest_workflow_docker (test input check subworkflow) / docker
1m 43s
pytest_workflow_docker (test input check subworkflow) / singularity
0s
pytest_workflow_docker (test make compatible subworkflow with vcf) / singularity
0s
pytest_workflow_docker (test make compatible subworkflow with vcf) / docker
1m 54s
pytest_workflow_docker (test make compatible subworkflow with pfile) / docker
1m 48s
pytest_workflow_docker (test make compatible subworkflow with pfile) / singularity
0s
pytest_workflow_docker (test make compatible subworkflow with bfile) / docker
1m 45s
pytest_workflow_docker (test match combine module) / docker
1m 51s
pytest_workflow_docker (test make compatible subworkflow with bfile) / singularity
0s
pytest_workflow_docker (test match combine module) / singularity
0s
pytest_workflow_docker (test match module) / docker
1m 58s
pytest_workflow_docker (test match module) / singularity
0s
pytest_workflow_docker (test perfect apply score) / docker
1m 57s
pytest_workflow_docker (test perfect apply score) / singularity
0s
1h 58m 48s