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Pycoqc requires h5py #15545

Merged
merged 5 commits into from
May 23, 2019
Merged

Pycoqc requires h5py #15545

merged 5 commits into from
May 23, 2019

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apeltzer
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  • I have read the guidelines for bioconda recipes.
  • This PR adds a new recipe.
  • AFAIK, this recipe is directly relevant to the biological sciences (otherwise, please submit to the more general purpose conda-forge channel).
  • This PR updates an existing recipe.
  • This PR does something else (explain below).

@apeltzer
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See error here on some data:


Command error:
  Traceback (most recent call last):
    File "/opt/conda/envs/nf-core-bacass-1.1.0dev/bin/Fast5_to_seq_summary", line 8, in <module>
      from pycoQC.cli import main_Fast5_to_seq_summary
    File "/opt/conda/envs/nf-core-bacass-1.1.0dev/lib/python3.6/site-packages/pycoQC/cli.py", line 20, in <module>
      from pycoQC.Fast5_to_seq_summary import Fast5_to_seq_summary
    File "/opt/conda/envs/nf-core-bacass-1.1.0dev/lib/python3.6/site-packages/pycoQC/Fast5_to_seq_summary.py", line 20, in <module>
      import h5py
  ModuleNotFoundError: No module named 'h5py'

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biocondabot bot commented May 23, 2019

Package(s) built on CircleCI are ready for inspection:

Arch Package Repodata
noarch pycoqc-2.2.3-py_2.tar.bz2 repodata.json

You may alsu use conda to install these:

  • For packages in noarch:
    conda install -c https://58543-42372094-gh.circle-artifacts.com/0/tmp/artifacts/packages <package name>
    

Docker image(s) built:

Package Tag Install with docker
pycoqc 2.2.3--py_2
showcurl "https://58543-42372094-gh.circle-artifacts.com/0/tmp/artifacts/images/pycoqc%3A2.2.3--py_2.tar.gz" | gzip -dc | docker load

@apeltzer
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And actually quite a bunch of other things as listed in the setup_dictionary:

'numpy>=1.13',
'scipy>=1.1',
'pandas>=0.23',
'plotly>=3.4',
'jinja2>=2.10',
'h5py>=2.8.0',
'tqdm>=4.23'],

@druvus druvus merged commit fcc44ed into master May 23, 2019
@druvus druvus deleted the pycoqc branch May 23, 2019 09:47
epruesse added a commit to epruesse/bioconda-recipes that referenced this pull request May 25, 2019
* master: (336 commits)
  Rebuild libgtextutils (bioconda#14659)
  set minced=0.3 (bioconda#15575)
  Update to plantcv v3.3.0 (bioconda#15539)
  add cami-opal recipe (bioconda#15573)
  Tango (bioconda#15570)
  stacks: bump version 2.4 (bioconda#15546)
  Bump segtools build for newer python versions (bioconda#15572)
  Update blast to 2.9.0 (bioconda#15550)
  add fastqsplitter recipe (bioconda#15568)
  Update xopen (bioconda#15566)
  r-probmetab - fix conda getting stuck on solving environment (bioconda#15519)
  Change sha256 for PGCGAP (bioconda#15565)
  Update PGCGAP to v1.0.2 (bioconda#15562)
  pb-falcon-0.3.3 (bioconda#15559)
  Spoa (bioconda#15555)
  seqbuster: bump to latest version (bioconda#15558)
  update irida uploader 0.2.1 (bioconda#15557)
  Super distance (bioconda#15551)
  Fix nanoplotter (bioconda#15548)
  Pycoqc requires h5py (bioconda#15545)
  ...
kpalin pushed a commit to kpalin/bioconda-recipes that referenced this pull request Aug 7, 2019
* Pycoqc requires h5py

* Add TQDM, too

* Add missing all dependencies

* Add jinja2

* Fix recipe
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2 participants