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Error at "TSS distance distribution" step #232

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marta-nazzari opened this issue Nov 2, 2022 · 0 comments
Open

Error at "TSS distance distribution" step #232

marta-nazzari opened this issue Nov 2, 2022 · 0 comments

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@marta-nazzari
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Hi,
I have an issue when running the pipeline at the step "TSS distance distribution" step.
Namely, the test_sample_peaks_partition_dist.pdf file is not created, possibly because the wrong path for saving is indicated. The pipeline continues executing without crashing.

This is the code snippet in question as it appears in the terminal:

> `TSS distance distribution`	QC_GRCm39/test_sample_mouse_peak_TSS_distribution.pdf	TSS distance distribution	QC_GRCm39/test_sample_mouse_peak_TSS_distribution.png	PEPATAC	_OBJ_
Target to produce: `/home/TEST_PEPATAC/test_sample_mouse/QC_GRCm39/test_sample_mouse_peak_genomic_distribution.pdf`  

> `Rscript /home/pepatac/tools/PEPATAC.R anno -p genomic -i /home/TEST_PEPATAC/test_sample_mouse/peak_calling_GRCm39/test_sample_mouse_peaks.narrowPeak -f /home/TEST_PEPATAC/test_sample_mouse/raw/GRCm39_annotations.bed -g GRCm39 -o /home/TEST_PEPATAC/test_sample_mouse/QC_GRCm39/test_sample_mouse_peak_genomic_distribution.pdf` (25612)
<pre>
touch: cannot touch '/home/TEST_PEPATAC/test_sample_mouse/QC_GRCm39/test_sample_mouse_peak_genomic_distribution.pdf/test_sample_peaks_partition_dist.pdf': No such file or directory
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