Hello, thank you for developing these tools for generating Fiber-seq QC plots.
We were able to successfully generate most of the expected PDF outputs using fiberseq-qc. The pipeline runs to completion without any reported errors. However, four of the resulting PDF files are completely blank (no plots or images rendered).
Affected output files:
randfibers.2K-4K.pdf
randfibers.pdf
autocorrelation.pdf
autocorrelation_smoothed.pdf
Workflow details:
- Added nucleosome and MSP annotations:
ft add-nucleosomes
-
Aligned Fiber-seq BAM files to the reference genome using pbmm2
-
Ran QC on the aligned BAM file:
fiberseq-qc/src/runall-qc.tcsh fiberseq_qc fiberseq.mapped.bam
The QC script executes without errors. Most PDF outputs are generated correctly. The four files listed above are produced but contain no data/plots.
Any guidance on potential causes or additional debugging steps would be very helpful.
Thank You!
Hello, thank you for developing these tools for generating Fiber-seq QC plots.
We were able to successfully generate most of the expected PDF outputs using fiberseq-qc. The pipeline runs to completion without any reported errors. However, four of the resulting PDF files are completely blank (no plots or images rendered).
Affected output files:
randfibers.2K-4K.pdf
randfibers.pdf
autocorrelation.pdf
autocorrelation_smoothed.pdf
Workflow details:
ft add-nucleosomesAligned Fiber-seq BAM files to the reference genome using pbmm2
Ran QC on the aligned BAM file:
fiberseq-qc/src/runall-qc.tcsh fiberseq_qc fiberseq.mapped.bamThe QC script executes without errors. Most PDF outputs are generated correctly. The four files listed above are produced but contain no data/plots.
Any guidance on potential causes or additional debugging steps would be very helpful.
Thank You!