Mercurial > repos > devteam > picard

annotate test-data/picard_ValidateSamFile_test1.txt @ 26:9ffcddf6f9c0 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit cbe534af56ee782e8d1aa0fa872059d2a5e42db8"
author iuc
date Mon, 17 Feb 2020 10:24:29 -0500
parents 3d4f1fa26f0e
children 3f254c5ced1d
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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5
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1 ERROR: Read groups is empty
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2 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:15130:6486, A record is missing a read group
3d4f1fa26f0e Uploaded
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3 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:19193:4910, A record is missing a read group
3d4f1fa26f0e Uploaded
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4 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:19687:27581, A record is missing a read group
3d4f1fa26f0e Uploaded
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5 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:25123:14783, A record is missing a read group
3d4f1fa26f0e Uploaded
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6 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:16897:10864, A record is missing a read group
3d4f1fa26f0e Uploaded
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7 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:18180:25039, A record is missing a read group
3d4f1fa26f0e Uploaded
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8 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:18745:16268, A record is missing a read group
3d4f1fa26f0e Uploaded
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9 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:28904:12081, A record is missing a read group
3d4f1fa26f0e Uploaded
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10 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:13486:23487, A record is missing a read group
3d4f1fa26f0e Uploaded
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11 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:13545:26345, A record is missing a read group
3d4f1fa26f0e Uploaded
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12 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:19673:17954, A record is missing a read group
3d4f1fa26f0e Uploaded
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13 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:3642:12806, A record is missing a read group
3d4f1fa26f0e Uploaded
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14 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:21319:16719, A record is missing a read group
3d4f1fa26f0e Uploaded
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15 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:26456:9833, A record is missing a read group
3d4f1fa26f0e Uploaded
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16 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:14672:12340, A record is missing a read group
3d4f1fa26f0e Uploaded
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17 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:24128:14251, A record is missing a read group
3d4f1fa26f0e Uploaded
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18 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:24520:20516, A record is missing a read group
3d4f1fa26f0e Uploaded
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19 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:7598:17197, A record is missing a read group
3d4f1fa26f0e Uploaded
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20 WARNING: Read name M01368:28:000000000-A5KYY:1:1106:15870:27794, A record is missing a read group
3d4f1fa26f0e Uploaded
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21 WARNING: Read name M01368:28:000000000-A5KYY:1:1106:18833:21202, A record is missing a read group
3d4f1fa26f0e Uploaded
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22 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:15130:6486, A record is missing a read group
3d4f1fa26f0e Uploaded
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23 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:19193:4910, A record is missing a read group
3d4f1fa26f0e Uploaded
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24 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:19687:27581, A record is missing a read group
3d4f1fa26f0e Uploaded
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25 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:22554:16461, A record is missing a read group
3d4f1fa26f0e Uploaded
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26 ERROR: 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
3d4f1fa26f0e Uploaded
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27 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:22554:16461, A record is missing a read group
3d4f1fa26f0e Uploaded
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28 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:25123:14783, A record is missing a read group
3d4f1fa26f0e Uploaded
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29 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:7459:20893, A record is missing a read group
3d4f1fa26f0e Uploaded
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30 ERROR: 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
3d4f1fa26f0e Uploaded
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31 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:7459:20893, A record is missing a read group
3d4f1fa26f0e Uploaded
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32 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:16897:10864, A record is missing a read group
3d4f1fa26f0e Uploaded
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33 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:18180:25039, A record is missing a read group
3d4f1fa26f0e Uploaded
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34 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:18745:16268, A record is missing a read group
3d4f1fa26f0e Uploaded
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35 WARNING: Read name M01368:28:000000000-A5KYY:1:1102:28904:12081, A record is missing a read group
3d4f1fa26f0e Uploaded
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36 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:13120:19662, A record is missing a read group
3d4f1fa26f0e Uploaded
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37 ERROR: 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
3d4f1fa26f0e Uploaded
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38 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:13120:19662, A record is missing a read group
3d4f1fa26f0e Uploaded
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39 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:13486:23487, A record is missing a read group
3d4f1fa26f0e Uploaded
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40 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:13545:26345, A record is missing a read group
3d4f1fa26f0e Uploaded
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41 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:14399:18263, A record is missing a read group
3d4f1fa26f0e Uploaded
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42 ERROR: 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
3d4f1fa26f0e Uploaded
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43 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:14399:18263, A record is missing a read group
3d4f1fa26f0e Uploaded
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44 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:19673:17954, A record is missing a read group
3d4f1fa26f0e Uploaded
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45 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:24192:10454, A record is missing a read group
3d4f1fa26f0e Uploaded
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46 ERROR: 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
3d4f1fa26f0e Uploaded
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diff changeset
47 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:24192:10454, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
48 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:3642:12806, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
49 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:6510:18393, A record is missing a read group
3d4f1fa26f0e Uploaded
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50 ERROR: 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
3d4f1fa26f0e Uploaded
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diff changeset
51 WARNING: Read name M01368:28:000000000-A5KYY:1:1103:6510:18393, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
52 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:13741:15680, A record is missing a read group
3d4f1fa26f0e Uploaded
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53 ERROR: 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
3d4f1fa26f0e Uploaded
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54 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:13741:15680, A record is missing a read group
3d4f1fa26f0e Uploaded
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55 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:21319:16719, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
56 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:24281:16164, A record is missing a read group
3d4f1fa26f0e Uploaded
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57 ERROR: 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
3d4f1fa26f0e Uploaded
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diff changeset
58 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:24281:16164, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
59 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:26456:9833, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
60 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:9455:13351, A record is missing a read group
3d4f1fa26f0e Uploaded
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61 ERROR: 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
3d4f1fa26f0e Uploaded
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62 WARNING: Read name M01368:28:000000000-A5KYY:1:1104:9455:13351, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
63 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:14672:12340, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
64 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:21471:18067, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
65 ERROR: 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
3d4f1fa26f0e Uploaded
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diff changeset
66 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:21471:18067, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
67 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:24128:14251, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
68 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:24520:20516, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
69 WARNING: Read name M01368:28:000000000-A5KYY:1:1105:7598:17197, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
70 WARNING: Read name M01368:28:000000000-A5KYY:1:1106:15870:27794, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
71 WARNING: Read name M01368:28:000000000-A5KYY:1:1106:18833:21202, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
72 WARNING: Read name M01368:28:000000000-A5KYY:1:1106:19331:13430, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
73 ERROR: 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
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
74 WARNING: Read name M01368:28:000000000-A5KYY:1:1106:19331:13430, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
75 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10045:12104, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
76 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10045:12104, A record is missing a read group
3d4f1fa26f0e Uploaded
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diff changeset
77 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10126:23848, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
78 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10126:23848, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
79 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10229:22034, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
80 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10229:22034, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
81 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10278:20774, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
82 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10278:20774, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
83 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10291:14859, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
84 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10291:14859, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
85 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10479:22035, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
86 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10479:22035, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
87 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10581:22138, A record is missing a read group
3d4f1fa26f0e Uploaded
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parents:
diff changeset
88 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10581:22138, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
89 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10696:7547, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
90 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10696:7547, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
91 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10891:2447, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
92 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:10891:2447, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
93 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11083:9831, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
94 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11083:9831, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
95 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11136:11974, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
96 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11136:11974, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
97 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11197:4908, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
98 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11197:4908, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
99 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11224:22137, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
100 WARNING: Read name M01368:28:000000000-A5KYY:1:1101:11224:22137, A record is missing a read group
3d4f1fa26f0e Uploaded
devteam
parents:
diff changeset
101 Maximum output of [100] errors reached.