Thanks to visit codestin.com
Credit goes to github.com

Skip to content

download: Make unzipped files executable. Fixes nf-core/tools#289 #290

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
apeltzer merged 4 commits into from
Mar 25, 2019
Merged

download: Make unzipped files executable. Fixes nf-core/tools#289 #290

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
4 commits
Select commit Hold shift + click to select a range
006a243
download: Make unzipped files executable. Fixes nf-core/tools#289
ewels Mar 20, 2019
c058158
Changelog
ewels Mar 20, 2019
5edf295
Merge branch 'dev' of github.com:nf-core/tools
ewels Mar 25, 2019
30ebd9e
Markdown: fix list indentation
ewels Mar 25, 2019
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 3 additions & 1 deletion CHANGELOG.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -8,7 +8,9 @@

#### Tools helper code
* Drop [nf-core/rnaseq](https://github.com/nf-core/rnaseq]) from `blacklist.json` to make template sync available
* Fix bug in `nf-core download` so that it now fetches the latest release by default
* Fix bugs in `nf-core download`
* The _latest_ release is now fetched by default if not specified
* Downloaded pipeline files are now properly executable

## [v1.5](https://github.com/nf-core/tools/releases/tag/1.5) - 2019-03-13 Iron Shark

Expand Down
5 changes: 5 additions & 0 deletions nf_core/download.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -170,6 +170,11 @@ def download_wf_files(self):
gh_name = '{}-{}'.format(self.wf_name, self.wf_sha).split('/')[-1]
os.rename(os.path.join(self.outdir, gh_name), os.path.join(self.outdir, 'workflow'))

# Make downloaded files executable
for dirpath, subdirs, filelist in os.walk(os.path.join(self.outdir, 'workflow')):
for fname in filelist:
os.chmod(os.path.join(dirpath, fname), 0o775)

def find_container_images(self):
""" Find container image names for workflow """

Expand Down