Ran
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Jobs
1
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Files
55
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Run time
5s
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<a href="https://github.com/broadinstitute/viral-ngs/commit/<a class=hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=hub.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0">2ead241d5"><a href="https://github.com/broadinstitute/viral-ngs/commit/</a><a class="double-link" href="https://github.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=</a>hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=</a>hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=</a>hub.com/broadinstitute/viral-ngs/commit/<a class="double-link" href="https://git"><a class=</a>hub.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0">2ead241d5</a><a href="https://github.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0"><a href="https://github.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0">&quot;&gt;&amp;lt;a href=&amp;quot;https://github.com/broadinstitute/viral-ngs/commit/&lt;/a&gt;&lt;a class=&quot;double-link&quot; href=&quot;https://github.com/broadinstitute/viral-ngs/commit/&amp;lt;a class=&amp;quot;double-link&amp;quot; href=&amp;quot;https://git&quot;&gt;&amp;lt;a class=&lt;/a&gt;hub.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0&quot;&gt;2ead241d5&lt;/a&gt;&lt;a href=&quot;https://github.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0&quot;&gt;&amp;lt;a href=&amp;quot;https://github.com/broadinstitute/viral-ngs/commit/2ead241d52d860a7e71a5367549fab04b49d62d0&amp;quot;&amp;gt;&amp;amp;quot;&amp;amp;gt;Revert &amp;amp;amp;quot;update git-annex; revert kraken to standard; drop separate envs for kraken and git-ann&lt;/a&gt;</a>ex&amp;quot; This reverts c... (continued)
1296 of 4380 branches covered (29.59%)
3 of 3 new or added lines in 2 files covered. (100.0%)
5414 of 10820 relevant lines covered (50.04%)
0.5 hits per line
Lines | Coverage | ∆ | File |
---|---|---|---|
1 |
93.75 |
0.0% | tools/krona.py |
4 |
42.06 |
16.31% | util/vcf.py |
6 |
74.6 |
-9.52% | tools/gatk.py |
10 |
77.49 |
28.27% | taxon_filter.py |
10 |
81.29 |
2.92% | tools/samtools.py |
11 |
51.35 |
-29.73% | tools/muscle.py |
14 |
32.76 |
-24.14% | file_utils.py |
14 |
63.84 |
-0.63% | tools/picard.py |
20 |
67.69 |
15.38% | util/misc.py |
27 |
41.51 |
-50.94% | tools/trinity.py |
27 |
45.45 |
-49.09% | tools/gap2seq.py |
28 |
64.71 |
-32.94% | kmer_utils.py |
28 |
79.92 |
19.38% | read_utils.py |
36 |
23.64 |
-65.45% | tools/prinseq.py |
38 |
65.96 |
-26.95% | tools/kmc.py |
45 |
53.89 |
-26.95% | util/cmd.py |
45 |
29.73 |
-60.81% | tools/spades.py |
49 |
46.67 |
-21.33% | tools/kraken.py |
51 |
24.75 |
-38.61% | util/genbank.py |
57 |
10.53 |
-50.0% | util/stats.py |
62 |
41.18 |
-15.86% | tools/__init__.py |
64 |
19.32 |
-72.73% | tools/mafft.py |
76 |
45.88 |
-26.88% | interhost.py |
101 |
18.95 |
-66.01% | tools/snpeff.py |
139 |
19.4 |
-59.91% | util/illumina_indices.py |
140 |
50.0 |
-18.27% | util/file.py |
145 |
61.04 |
-0.11% | metagenomics.py |
263 |
9.67 |
-66.92% | tools/mummer.py |
270 |
14.56 |
-51.72% | illumina.py |
493 |
10.63 |
-71.32% | intrahost.py |
571 |
14.08 |
-74.45% | assembly.py |
Coverage | ∆ | File | Lines | Relevant | Covered | Missed | Hits/Line | Branch Hits | Branch Misses |
---|