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view test-data/picard_ValidateSamFile_test1.txt @ 33:3f254c5ced1d draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 9ecbbb878d68a980ba35a90865e524c723ca3ed8
author iuc
date Sun, 03 Mar 2024 16:06:11 +0000
parents 3d4f1fa26f0e
children
line wrap: on
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ERROR::MISSING_READ_GROUP:Read groups is empty
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:15130:6486, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:19193:4910, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:19687:27581, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:25123:14783, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:16897:10864, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:18180:25039, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:18745:16268, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:28904:12081, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:13486:23487, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:13545:26345, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:19673:17954, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:3642:12806, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:21319:16719, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:26456:9833, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:14672:12340, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:24128:14251, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:24520:20516, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:7598:17197, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1106:15870:27794, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1106:18833:21202, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:15130:6486, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:19193:4910, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:19687:27581, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:22554:16461, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 24, Read name M01368:28:000000000-A5KYY:1:1101:22554:16461, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:22554:16461, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:25123:14783, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:7459:20893, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 28, Read name M01368:28:000000000-A5KYY:1:1101:7459:20893, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:7459:20893, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:16897:10864, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:18180:25039, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:18745:16268, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1102:28904:12081, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:13120:19662, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 33, Read name M01368:28:000000000-A5KYY:1:1103:13120:19662, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:13120:19662, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:13486:23487, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:13545:26345, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:14399:18263, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 37, Read name M01368:28:000000000-A5KYY:1:1103:14399:18263, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:14399:18263, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:19673:17954, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:24192:10454, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 41, Read name M01368:28:000000000-A5KYY:1:1103:24192:10454, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:24192:10454, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:3642:12806, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:6510:18393, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 43, Read name M01368:28:000000000-A5KYY:1:1103:6510:18393, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1103:6510:18393, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:13741:15680, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 45, Read name M01368:28:000000000-A5KYY:1:1104:13741:15680, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:13741:15680, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:21319:16719, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:24281:16164, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 48, Read name M01368:28:000000000-A5KYY:1:1104:24281:16164, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:24281:16164, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:26456:9833, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:9455:13351, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 51, Read name M01368:28:000000000-A5KYY:1:1104:9455:13351, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1104:9455:13351, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:14672:12340, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:21471:18067, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 54, Read name M01368:28:000000000-A5KYY:1:1105:21471:18067, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:21471:18067, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:24128:14251, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:24520:20516, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1105:7598:17197, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1106:15870:27794, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1106:18833:21202, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1106:19331:13430, A record is missing a read group
ERROR::MISMATCH_FLAG_MATE_NEG_STRAND:Record 61, Read name M01368:28:000000000-A5KYY:1:1106:19331:13430, Mate negative strand flag does not match read negative strand flag of mate
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1106:19331:13430, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10045:12104, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10045:12104, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10126:23848, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10126:23848, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10229:22034, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10229:22034, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10278:20774, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10278:20774, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10291:14859, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10291:14859, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10479:22035, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10479:22035, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10581:22138, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10581:22138, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10696:7547, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10696:7547, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10891:2447, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:10891:2447, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11083:9831, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11083:9831, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11136:11974, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11136:11974, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11197:4908, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11197:4908, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11224:22137, A record is missing a read group
WARNING::RECORD_MISSING_READ_GROUP:Read name M01368:28:000000000-A5KYY:1:1101:11224:22137, A record is missing a read group
Maximum output of [100] errors reached.