We read every piece of feedback, and take your input very seriously.
To see all available qualifiers, see our documentation.
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
The nanostat module breaks when reports were obtained from bam/cram files that have no qscores (i.e when plain fasta reads were used for mapping).
Currently, the nanostat module checks if the stats were obtained from alignments and calls reads_by_quality_plot(), which then throws the error below.
reads_by_quality_plot()
foo.bam_NanoStats.txt
╭──────────────── Oops! The 'nanostat' MultiQC module broke... ────────────────╮ │ Please copy this log and report it at │ │ https://github.com/ewels/MultiQC/issues │ │ Please attach a file that triggers the error. The last file found was: │ │ ./foo_bam_NanoStats.txt │ │ │ │ Traceback (most recent call last): │ │ File "/opt/conda/lib/python3.10/site-packages/multiqc/multiqc.py", line 65 │ │ output = mod() │ │ File "/opt/conda/lib/python3.10/site-packages/multiqc/modules/nanostat/nan │ │ self.reads_by_quality_plot() │ │ File "/opt/conda/lib/python3.10/site-packages/multiqc/modules/nanostat/nan │ │ reads_gt = data_dict[data_key] │ │ KeyError: '>Q5_aligned' │ │ │ ╰──────────────────────────────────────────────────────────────────────────────╯
The text was updated successfully, but these errors were encountered:
Successfully merging a pull request may close this issue.
Description of bug
The nanostat module breaks when reports were obtained from bam/cram files that have no qscores (i.e when plain fasta reads were used for mapping).
Currently, the nanostat module checks if the stats were obtained from alignments and calls
reads_by_quality_plot()
, which then throws the error below.File that triggers the error
foo.bam_NanoStats.txt
MultiQC Error log
The text was updated successfully, but these errors were encountered: