Commit 1d2d6a67 authored by van den Berg's avatar van den Berg
Browse files

Merge branch 'devel' of git.lumc.nl:hem/hamlet into devel

parents 9e17f00b 5e4d6371
Pipeline #6519 failed with stages
......@@ -14,9 +14,9 @@ localrules: create_summary, generate_report, package_results
containers = {
"fsnviz": "docker://quay.io/biocontainers/fsnviz:0.3.0--py_3",
"hamlet-scripts": "docker://lumc/hamlet-scripts:0.3",
"hamlet-scripts": "docker://quay.io/redmar_van_den_berg/hamlet-scripts:0.3",
"debian": "docker://debian:buster-slim",
"zip": "docker://lumc/zip:3.0"
"zip": "docker://quay.io/redmar_van_den_berg/zip:3.0"
}
settings=config["settings"]
......
......@@ -11,7 +11,7 @@ containers = {
"bedtools-2.17-python-2.7": "docker://quay.io/biocontainers/mulled-v2-a9ddcbd438a66450297b5e0b61ac390ee9bfdb61:e60f3cfda0dfcf4a72f2091c6fa1ebe5a5400220-0",
"htseq": "docker://quay.io/biocontainers/htseq:0.11.2--py27h637b7d7_1",
"picard": "docker://quay.io/biocontainers/picard:2.20.5--0",
"hamlet-scripts": "docker://lumc/hamlet-scripts:0.2"
"hamlet-scripts": "docker://quay.io/redmar_van_den_berg/hamlet-scripts:0.2"
}
settings=config["settings"]
......
......@@ -12,7 +12,7 @@ containers = {
"fuma": "docker://quay.io/biocontainers/fuma:3.0.5--py27h24bf2e0_1",
"fusioncatcher": "docker://quay.io/biocontainers/fusioncatcher:1.20--2",
"star-fusion": "docker://quay.io/biocontainers/star-fusion:1.6.0--1",
"hamlet-scripts": "docker://lumc/hamlet-scripts:0.2"
"hamlet-scripts": "docker://quay.io/redmar_van_den_berg/hamlet-scripts:0.2"
}
settings=config["settings"]
......
......@@ -4,7 +4,7 @@ from os import path
containers = {
"bwa-0.7.17-samtools-1.3.1-picard-2.9.2": "docker://quay.io/biocontainers/mulled-v2-1c6be8ad49e4dfe8ab70558e8fb200d7b2fd7509:5900b4e68c4051137fffd99165b00e98f810acae-0",
"rose": "docker://lumc/rose-dt:0.4"
"rose": "docker://quay.io/redmar_van_den_berg/rose-dt:0.4"
}
settings=config["settings"]
......
......@@ -2,7 +2,7 @@ from os import path
containers = {
"bwa-0.7.17-samtools-1.3.1-picard-2.9.2": "docker://quay.io/biocontainers/mulled-v2-1c6be8ad49e4dfe8ab70558e8fb200d7b2fd7509:5900b4e68c4051137fffd99165b00e98f810acae-0",
"rose": "docker://lumc/rose-dt:0.4"
"rose": "docker://quay.io/redmar_van_den_berg/rose-dt:0.4"
}
settings=config["settings"]
......
......@@ -9,7 +9,7 @@ containers = {
"bedtools-2.27-grep-2.14-gawk-5.0-click-7-python-3.7": "docker://quay.io/biocontainers/mulled-v2-a4b89e0b16b1d7db92e5a069e5c40405b3b53aab:98c4ac2f0e27869be58f6a4d8bb7ae3bc02a3a70-0",
"debian": "docker://debian:buster-slim",
"gsnap": "docker://quay.io/biocontainers/gmap:2020.06.30--pl526h2f06484_0",
"hamlet-scripts": "docker://lumc/hamlet-scripts:0.2",
"hamlet-scripts": "docker://quay.io/redmar_van_den_berg/hamlet-scripts:0.2",
"picard": "docker://quay.io/biocontainers/picard:2.20.5--0",
"python3": "docker://python:3.7.4-slim-stretch",
"samtools": "docker://quay.io/biocontainers/samtools:1.6--h244ad75_4",
......
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