From ef96f079f6fad02c99eabb9db40bc199fa6d77f8 Mon Sep 17 00:00:00 2001 From: Sage Wright Date: Mon, 25 Nov 2024 17:24:44 +0000 Subject: [PATCH] update doc dockers --- docs/workflows/genomic_characterization/theiaprok.md | 2 +- docs/workflows/standalone/tbprofiler_tngs.md | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/workflows/genomic_characterization/theiaprok.md b/docs/workflows/genomic_characterization/theiaprok.md index 66c43bdf1..ee112ce53 100644 --- a/docs/workflows/genomic_characterization/theiaprok.md +++ b/docs/workflows/genomic_characterization/theiaprok.md @@ -418,7 +418,7 @@ All input reads are processed through "[core tasks](#core-tasks-performed-for-al | merlin_magic | **tbp_parser_coverage_regions_bed** | File | A bed file that lists the regions to be considered for QC | | Optional | FASTA, ONT, PE, SE | | merlin_magic | **tbp_parser_coverage_threshold** | Int | The minimum coverage for a region to pass QC in tbp_parser | 100 | Optional | FASTA, ONT, PE, SE | | merlin_magic | **tbp_parser_debug** | Boolean | Activate the debug mode on tbp_parser; increases logging outputs | TRUE | Optional | FASTA, ONT, PE, SE | -| merlin_magic | **tbp_parser_docker_image** | String | The Docker container to use for the task | us-docker.pkg.dev/general-theiagen/theiagen/tbp-parser:2.1.0 | Optional | FASTA, ONT, PE, SE | +| merlin_magic | **tbp_parser_docker_image** | String | The Docker container to use for the task | us-docker.pkg.dev/general-theiagen/theiagen/tbp-parser:2.1.1 | Optional | FASTA, ONT, PE, SE | | merlin_magic | **tbp_parser_etha237_frequency** | Float | Minimum frequency for a mutation in ethA at protein position 237 to pass QC in tbp-parser | 0.1 | Optional | FASTA, ONT, PE, SE | | merlin_magic | **tbp_parser_expert_rule_regions_bed** | File | A file that contains the regions where R mutations and expert rules are applied | | Optional | FASTA, ONT, PE, SE | | merlin_magic | **tbp_parser_min_depth** | Int | Minimum depth for a variant to pass QC in tbp_parser | 10 | Optional | FASTA, ONT, PE, SE | diff --git a/docs/workflows/standalone/tbprofiler_tngs.md b/docs/workflows/standalone/tbprofiler_tngs.md index 64a64b364..874183471 100644 --- a/docs/workflows/standalone/tbprofiler_tngs.md +++ b/docs/workflows/standalone/tbprofiler_tngs.md @@ -23,7 +23,7 @@ This workflow is still in experimental research stages. Documentation is minimal | tbp_parser | **coverage_threshold** | Int | The minimum percentage of a region to exceed the minimum depth for a region to pass QC in tbp_parser | 100 | Optional | | tbp_parser | **cpu** | Int | Number of CPUs to allocate to the task | 1 | Optional | | tbp_parser | **disk_size** | Int | Amount of storage (in GB) to allocate to the task | 100 | Optional | -| tbp_parser | **docker** | String | The Docker container to use for the task | us-docker.pkg.dev/general-theiagen/theiagen/tbp-parser:2.1.0 | Optional | +| tbp_parser | **docker** | String | The Docker container to use for the task | us-docker.pkg.dev/general-theiagen/theiagen/tbp-parser:2.1.1 | Optional | | tbp_parser | **etha237_frequency** | Float | Minimum frequency for a mutation in ethA at protein position 237 to pass QC in tbp-parser | 0.1 | Optional | | tbp_parser | **expert_rule_regions_bed** | File | A file that contains the regions where R mutations and expert rules are applied | | Optional | | tbp_parser | **memory** | Int | Amount of memory/RAM (in GB) to allocate to the task | 4 | Optional |