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Hifiasm: account for lines with no asterisk #2268

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merged 3 commits into from
Jan 19, 2024
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Hifiasm: account for lines with no asterisk #2268

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79e285b
changed hifiasm module to account for lines with no asterisk
mbeavitt-bh Jan 19, 2024
3b1a802
[automated] Update CHANGELOG.md
multiqc-bot Jan 19, 2024
434ec8a
[automated] Update CHANGELOG.md
multiqc-bot Jan 19, 2024
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7 changes: 4 additions & 3 deletions CHANGELOG.md
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Expand Up @@ -18,11 +18,12 @@

### Module updates

- **mosdepth**: Add additional summaries to general stats #2257 ([#2257](https://github.com/MultiQC/MultiQC/pull/2257))
- **Seqera Platform CLI**: Updates for v0.9.2 ([#2248](https://github.com/MultiQC/MultiQC/pull/2248))
- **Bismark**: fix old link in docs ([#2252](https://github.com/MultiQC/MultiQC/pull/2252))
- **BclConvert**: fix duplicated `yield` for 3.9.3+ when the yield is provided explicitly in Quality_Metrics ([#2253](https://github.com/MultiQC/MultiQC/pull/2253))
- **Bismark**: fix old link in docs ([#2252](https://github.com/MultiQC/MultiQC/pull/2252))
- **HiFiasm**: account for lines with no asterisk ([#2268](https://github.com/MultiQC/MultiQC/pull/2268))
- **mosdepth**: Add additional summaries to general stats #2257 ([#2257](https://github.com/MultiQC/MultiQC/pull/2257))
- **Picard**: fix using multiple times in report: do not pass `module.anchor` to `self.find_log_files` ([#2255](https://github.com/MultiQC/MultiQC/pull/2255))
- **Seqera Platform CLI**: Updates for v0.9.2 ([#2248](https://github.com/MultiQC/MultiQC/pull/2248))

## [MultiQC v1.19](https://github.com/ewels/MultiQC/releases/tag/v1.19) - 2023-12-18

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7 changes: 5 additions & 2 deletions multiqc/modules/hifiasm/hifiasm.py
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Expand Up @@ -100,8 +100,11 @@ def extract_kmer_graph(self, fin):
# Special case
if occurrence == "rest":
continue
# Count of the occurrence
count = int(spline[3])
# Count of the occurrence, checking for lines with no asterisk before count.
if "*" in spline[2]:
count = int(spline[3])
else:
count = int(spline[2])
data[int(occurrence)] = count
# If we are no longer in the histogram
elif found_histogram:
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