omic

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• Joined on 2025-10-06

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13

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omic pushed to master at omic/pocketminer 2026-03-23 17:07:57 +00:00

a430caaf96 Upload results to S3 via boto3 instead of publishDir (fixes S3 write)

omic pushed to master at omic/pocketminer 2026-03-23 16:56:23 +00:00

e52adef212 Use v2 image tag to force fresh pull with boto3 baked in

omic pushed to master at omic/pocketminer 2026-03-23 15:53:27 +00:00

c0f82a2055 Add boto3 to Docker image for authenticated S3/MinIO downloads

omic pushed to master at omic/pocketminer 2026-03-23 15:14:08 +00:00

9d132c308d Install boto3 at runtime for authenticated S3 download (fix syntax error)

omic pushed to master at omic/pocketminer 2026-03-23 15:06:54 +00:00

c0f0e38f27 Use boto3/signed URL for authenticated MinIO download (403 fix)

omic pushed to master at omic/pocketminer 2026-03-23 14:56:12 +00:00

7abd6eb267 Use wget/python instead of curl for MinIO download (curl not in image)

omic pushed to master at omic/pocketminer 2026-03-23 14:50:55 +00:00

e74a9441a4 Fix input resolution: disable bash strict mode, quiet logging, add auth fallback

omic pushed to master at omic/pocketminer 2026-03-23 14:41:19 +00:00

35dd4ab976 Add multi-method input file resolution for WES

omic pushed to master at omic/pocketminer 2026-03-23 14:27:27 +00:00

14091fce87 Match meta-predictor's working WES pattern

omic pushed to master at omic/pocketminer 2026-03-23 13:51:42 +00:00

6aedad69e4 Add nf-amazon plugin for direct S3/MinIO access

omic pushed to master at omic/pocketminer 2026-03-23 13:04:56 +00:00

4660bdf62a Remove stageInMode copy — may conflict with k8s executor

omic pushed to master at omic/pocketminer 2026-03-23 12:51:42 +00:00

5465d9b8b1 Fix nextflow.config to match WES k8s pattern

omic pushed to master at omic/pocketminer 2026-03-23 12:27:50 +00:00

42d4e6cb87 Add WES pipeline configuration for pocketminer

omic deleted branch main from omic/pocketminer 2026-03-23 10:58:20 +00:00

omic pushed to master at omic/pocketminer 2026-03-23 10:57:44 +00:00

omic created branch master in omic/pocketminer 2026-03-23 10:57:44 +00:00

omic pushed to main at omic/pocketminer 2026-03-23 10:57:00 +00:00

6071e5ad1f Update file README.md

omic created branch main in omic/pocketminer 2026-03-23 10:57:00 +00:00

omic created repository omic/pocketminer 2026-03-23 10:55:16 +00:00

omic pushed to main at omic/ligandmpnn 2026-03-19 10:59:08 +00:00

dc60983679 Force CPU mode by unsetting CUDA_VISIBLE_DEVICES