wgbs-pipeline

wgbs-pipeline copied to clipboard

**Describe the bug** The pipeline creates a file that it doesn't think exists. In the example below, one case of this would be `/redacted/wgbs_test/wgbs/91e49ae4-9226-4824-af45-301fc1a815e8/call-map/shard-0/inputs/667055062/indexes.tar.gz`, which does exist when I check...

molecules

used software of your workflow

1

Thanks for your contribution, I want to refer to your process to implement it step by step, but I can't find the detailed use method, software and workflow，such as smtools、bismark、or...

songxh1996

failed with test data

1

**OS/Platform** - OS/Platform: Ubuntu 20.04.3 LTS - Conda version: conda 4.11.0 - Pipeline version: v1.1.8 - Caper version: v2.1.3 **Caper configuration file** ``` backend=local # Hashing strategy for call-caching (3...

brainfo

TypeError in wgbs.map Step

4

**Describe the bug** At the wgbs.map step, I get a TypeError: > ==== NAME=wgbs.map, STATUS=Failed, PARENT= > SHARD_IDX=1, RC=1, JOB_ID=9608 > START=2021-10-15T03:04:21.289Z, END=2021-10-15T03:09:23.663Z > STDOUT=/resource3/data/WGBS/Processed_Caper/wgbs/9f04e4dd-2a84-4af6-8731-d3c49f6e2782/call-map/shard-1/attempt-2/execution/stdout > STDERR=/resource3/data/WGBS/Processed_Caper/wgbs/9f04e4dd-2a84-4af6-8731-d3c49f6e2782/call-map/shard-1/attempt-2/execution/stderr > STDERR_CONTENTS= >...

ebprideaux