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devlog.txt
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devlog.txt
Errors
Building wheels for collected packages: django-select2, SOAPpy, Fabric, pynnotator, pyvcf
Running setup.py bdist_wheel for django-select2 ... error
Complete output from command /home/raony/dev/rockbio/rockbioenv/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-lv6gcbnb/django-select2/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmpmv22myexpip-wheel- --python-tag cp35:
usage: -c [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...]
or: -c --help [cmd1 cmd2 ...]
or: -c --help-commands
or: -c cmd --help
error: invalid command 'bdist_wheel'
----------------------------------------
Failed building wheel for django-select2
Running setup.py clean for django-select2
Running setup.py bdist_wheel for SOAPpy ... error
Complete output from command /home/raony/dev/rockbio/rockbioenv/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-lv6gcbnb/SOAPpy/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmprqouw21lpip-wheel- --python-tag cp35:
usage: -c [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...]
or: -c --help [cmd1 cmd2 ...]
or: -c --help-commands
or: -c cmd --help
error: invalid command 'bdist_wheel'
----------------------------------------
Failed building wheel for SOAPpy
Running setup.py clean for SOAPpy
Running setup.py bdist_wheel for Fabric ... error
Complete output from command /home/raony/dev/rockbio/rockbioenv/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-lv6gcbnb/Fabric/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmp_7u8wurepip-wheel- --python-tag cp35:
usage: -c [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...]
or: -c --help [cmd1 cmd2 ...]
or: -c --help-commands
or: -c cmd --help
error: invalid command 'bdist_wheel'
----------------------------------------
Failed building wheel for Fabric
Running setup.py clean for Fabric
Running setup.py bdist_wheel for pynnotator ... error
Complete output from command /home/raony/dev/rockbio/rockbioenv/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-lv6gcbnb/pynnotator/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmpy56355sspip-wheel- --python-tag cp35:
usage: -c [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...]
or: -c --help [cmd1 cmd2 ...]
or: -c --help-commands
or: -c cmd --help
error: invalid command 'bdist_wheel'
----------------------------------------
Failed building wheel for pynnotator
Running setup.py clean for pynnotator
Running setup.py bdist_wheel for pyvcf ... error
Complete output from command /home/raony/dev/rockbio/rockbioenv/bin/python3 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-lv6gcbnb/pyvcf/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmpytxn934opip-wheel- --python-tag cp35:
usage: -c [global_opts] cmd1 [cmd1_opts] [cmd2 [cmd2_opts] ...]
or: -c --help [cmd1 cmd2 ...]
or: -c --help-commands
or: -c cmd --help
error: invalid command 'bdist_wheel'
----------------------------------------
Failed building wheel for pyvcf
Running setup.py clean for pyvcf
Failed to build django-select2 SOAPpy Fabric pynnotator pyvcf
OneClick
Upload
Are both broken at the moment
TODO
Fix both (Select2)
Upgrade Bootstrap
Add Blog
Enable Cases
Enable Pathway Analysis
Add Projects
Add import from S3
Add Select Annotation
Declouple VCF and Annotation Fields (test performance)
- Add Blog
- Include GEMINI and PCGR for annotation.
- Add support for BAM files
- Add support for FASTQ
- Add insert command line
- Add tests
- Add pip-8 compatible
- Add flags on README.md
- Add Pandas Support
Fixed Select2 Templates
Fix OMIM Searhc boxes
Improve Template
Clean Up Templates
Fix Docker-compose
- Add tooltip.js and topover.js
- Disable button while uploading
- Prevent errors while creating username with spaces
- Add openid
Upgrade Templates for bootstrap v4
Fix Static Files
Reformat all code!
Delete Template!
Fix e-mails.
Fix all render_to_response!
Generated new dataset
tar -czvf pynnotator.data.0.4.tar.gz data/
tar -czvf pynnotator.libs.0.4.tar.gz libs/
Try to store data on google cloud. Make alternative on ScaleWay.
gsutil cp pynnotator.data.0.4.tar.gz gs://rockbio/
Finished updating pynnotator!!!
Not Found: /upload/view/
[25/Apr/2017 07:02:07] "GET /upload/view/ HTTP/1.1" 404 3548
[25/Apr/2017 07:02:07] "GET /static/jquery-fileupload/img/loading.gif HTTP/1.1" 200 3897
entrou no create!
form is valid!
filename ['NA12878', 'recessive', 'vcf', 'gz']
celery -A rockbio worker -l info
How to create a super user using Docker
docker exec -it e2465e9bd4e8 export USE_DOCKER=yes python3 manage.py createsuperser
or
docker-compose run web bash -c "export USE_DOCKER=yes;python3 manage.py createsuperuser"