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36 Open 56 Closed
36 Open 56 Closed
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Issues list

Same ID documentation for use and sanitization
#228 opened Sep 9, 2024 by yashpatel6
template-input-FASTQ has bam_header_sm and lane example information switched.
#227 opened Sep 5, 2024 by sorelfitzgibbon
Email notifications enhancement New feature or request
#222 opened Jul 30, 2024 by yashpatel6
@nwiltsie @yashpatel6
test-metapipeline-DNA-batch test case always reports success bug Something isn't working
#205 opened May 24, 2024 by nwiltsie
1
rm: cannot remove /scratch: permission denied
#203 opened May 23, 2024 by tgebo
@yashpatel6
4
docker: Error response from daemon: failed to create endpoint nxf-KT6fcPSRKcRvNRrVSGzfy0iU on network bridge
#193 opened Apr 26, 2024 by tyamaguchi-ucla
@yashpatel6
Metapipeline job silently failed during recalibrate BAM - identify_outputs
#189 opened Apr 8, 2024 by nwiltsie
2
Cannot remove convert-BAM2FASTQ work directroy: Directory not empty
#186 opened Apr 3, 2024 by zhuchcn
@yashpatel6
2
WXS/Targeted - intersect_regions param for call-sSNV in template.config
#183 opened Mar 25, 2024 by Faizal-Eeman
@sorelfitzgibbon
13
Option for germline SV calling with tumor samples
#173 opened Mar 14, 2024 by yashpatel6
@yashpatel6
Make methods.get_cpus_and_memory more general
#171 opened Mar 13, 2024 by zhuchcn
Unexpected alignment name collision bug Something isn't working
#169 opened Mar 11, 2024 by graceooh
@yashpatel6
Add selected tools to the main log.info section
#162 opened Feb 13, 2024 by sorelfitzgibbon
1
Documentation request: Add instructions or link to instructions for auto-generation of input files.
#154 opened Dec 27, 2023 by alkaZeltser
Add option to run pairs of samples on separate nodes when given multiple tumors per patient in paired mode
#151 opened Dec 8, 2023 by yashpatel6
@yashpatel6
Allow choice of sample when running multi-tumor patients in paired mode with a single normal
#149 opened Nov 22, 2023 by yashpatel6
@yashpatel6
1
Remove dependency on common workDir
#145 opened Oct 27, 2023 by yashpatel6
@yashpatel6
Feature Request: Add resume logic option to pick up from individual pipeline steps enhancement New feature or request
#120 opened Jun 30, 2023 by Alfredo-Enrique
1
Individual pipeline failure not propagated to the leading job
#119 opened Jun 29, 2023 by zhuchcn
9
Cell line specific situation - N and T samples with different patient IDs enhancement New feature or request
#114 opened Jun 20, 2023 by RoniHaas
@yashpatel6
6
File not found during call-gSNP step
#111 opened Jun 9, 2023 by Alfredo-Enrique
@Alfredo-Enrique
1
Change project_id to dataset_id
#102 opened May 3, 2023 by yashpatel6
@yashpatel6
Add support for HISAT2 aligner
#88 opened Feb 2, 2023 by yashpatel6
@yashpatel6
Pipeline completes with unknown error
#80 opened Dec 22, 2022 by raagagrawal
3
Update channel data structure
#76 opened Dec 8, 2022 by yashpatel6
@yashpatel6
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