diff --git a/workflow/conf/biohpc.config b/workflow/conf/biohpc.config deleted file mode 100755 index 73042192e0ecd639910316421a8a2e198f5ff7cd..0000000000000000000000000000000000000000 --- a/workflow/conf/biohpc.config +++ /dev/null @@ -1,53 +0,0 @@ -params { - // Reference file paths on BioHPC - genomes { - 'GRCh38-3.0.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'GRCh38-1.2.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'hg19-3.0.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'hg19-1.2.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'mm10-3.0.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'mm10-1.2.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'GRCh38_and_mm10-3.1.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'hg19_and_mm10-3.0.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'hg19_and_mm10-1.2.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - 'ercc92-1.2.0' { - loc = '/project/apps_database/cellranger/refdata-cellranger-' - } - } - // Chemistry mapping parameter - chemistry { - 'auto' { - param = 'auto' - } - '3GEXv1' { - param = 'SC3Pv1' - } - '3GEXv2' { - param = 'SC3Pv2' - } - '3GEXv3' { - param = 'SC3Pv3' - } - '5GEX' { - param = 'fiveprime' - } - } -} diff --git a/workflow/nextflow.config b/workflow/nextflow.config index 94688ff60c1f4bec0986927785d9d3f25ba7ec31..527b3ca62cada28034d668dc1aba67936a137bd3 100644 --- a/workflow/nextflow.config +++ b/workflow/nextflow.config @@ -1,8 +1,8 @@ profiles { - biohpc.local { + biohpc_local { includeConfig 'conf/biohpc_local.config' } - biohpc.cluster { + biohpc_cluster { includeConfig 'conf/biohpc_cluster.config' } aws {