Version 1.1 merge Master > Dev #140
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PyPi cannot work with the requirements.txt, as it is not published with the nf-core tools distribution. The better way is to define the required modules in the respective section in the setuptools setup() method.
Patch 1/fix broken pip installation
fix CI with new MultiQC version in minimal example
Made a basic command which runs cookiecutter on the template files.
Removed large number of cookiecutter variables, made init command use flags only.
This script should be executed, once a new release is done for nf-core tools. It will traverse all pipelines and make changes according to the cookiecutter template and commit them into each pipelines branch 'TEMPLATE'.
* Added new command line option to specify version for new pipeline * Split functionality out into its own file * Wrote feature to initialise a git repository and make a commit in new pipeline
Update dev from master
Instead call the command nf-core create
Cookiecutter merge
Updated with recent cookiecutter updates
* Resolves #78 * Add test for lint
Fixed config bug in singularity profile
The unquoted travis tests were breaking the YAML, meaning that Travis wasn't running.
Quote the new .travis.yaml tests
nf-core create: Refactor, add --outdir
Make --force work for nf-core create
Refactor sync
Refactored cookiecutter variables, overhauled docs
v1.1 version bump & changelog update
Use config.get to avoid KeyErrors. Don't use --release for nf-core/tools
Codecov Report
@@ Coverage Diff @@
## master #140 +/- ##
=========================================
- Coverage 95.31% 88.9% -6.41%
=========================================
Files 6 7 +1
Lines 661 730 +69
=========================================
+ Hits 630 649 +19
- Misses 31 81 +50
Continue to review full report at Codecov.
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Preparing a v1.1 release
Just needs a version number bump and changelog update