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.sqlite and NFS are incompatible. Move the .sqlite ruffus database to somewhere not on the NFS (/tmp)
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Hi Antonio,
Great initiative!
My comments:
* The `requirements.rst` is not nicely rendered on GitHub and makes it difficult to read:
https://github.com/AntonioJBT/project_quickstart/blob/m…
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Error:
> $ ocrmypdf --remove-background --clean almonds.tiff new.pdf
> INFO - Input file is not a PDF, checking if it is an image...
> INFO - Input file is an image
> INFO - Image seems…
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ERROR - Traceback (most recent call last):
File "/usr/local/lib/python3.6/site-packages/ruffus/task.py", line 751, in run_pooled_job_without_exceptions
register_cleanup, touch_files_only)
…
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Hi David,
I'm having a different issue now. Not sure what changed in the system. I wanted to re-run the test dataset from start to finish just to make sure it all runs correctly.
When I ran it, t…
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On Archlinux, ocrmypdf recently stops working.
$ ocrmypdf -l fra scan0196.pdf out.pdf
ERROR - Traceback (most recent call last):
File "/usr/lib/python3.6/site-packages/ruffus/task.py", line 7…
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The `mergeBAMFiles` is not run for the mapping pipeline because it does not appear as a ruffus target in the final full target.
Needs to be added
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When using `trim_galore` in `pipeline_readqc.py`, the following exception occurs:
```
Exception #4
'builtins.OSError(---------------------------------------
Child was terminated …
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Note: description added late
[Debian Bug Report](https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=888917)
[Debian CI Logs](https://ci.debian.net/packages/o/ocrmypdf/unstable/amd64/)
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Hi @CGATOxford/contributors,
When running `pipeline_testing.py` I run into the following issue in task `runDESeq2` of `pipeline_rnaseqdiffexpression.py`.
```
Task = def runDESeq2(...)…