Bump pysam from 0.15.3 to 0.15.4

Bumps pysam from 0.15.3 to 0.15.4.

Release notes

pysam-v0.15.4

Release 0.15.4

Bugfix release. Principal reason for release is to update cython version in order to fix pip install pysam with python 3.8.

#879 Fix add_meta function in libcbcf.pyx, so meta-information lines in header added with this function have double-quoting rules in accordance to rules specified in VCF4.2 and VCF4.3 specifications

#863 Force arg to bytes to support non-ASCII encoding

#875 Bump minimum Cython version

#868 Prevent segfault on Python 2.7 AlignedSegment.compare(other=None)

#867 Fix wheel building on TravisCI

#863 Force arg to bytes to support non-ASCII encoding

#799 disambiguate interpretation of bcf_read return code

#841 Fix silent truncation of FASTQ with bad q strings

#846 Prevent segmentation fault on ID, when handling malformed records

#829 Run configure with the correct CC/CFLAGS/LDFLAGS env va

Changelog

Sourced from pysam's changelog.

An online version of the installation instructions can be found here: http://pysam.readthedocs.io/en/latest/release.html

============= Release notes

Commits

c818db5 {AH} import utils with package name
9ff3144 {AH} add release notes and bump version to 0.15.4
44fc853 Merge pull request #879 from lltw/fix-add-meta-in-variant-header-class
9225acc Merge pull request #878 from nsoranzo/patch-1
b6b5ce6 Restore twine upload on tag
bafb0e9 Merge pull request #875 from ExplodingCabbage/bump-min-cython
74fa4ef Merge pull request #868 from rjlasko/AlignedSegment-compare-None
6b2dddd Merge pull request #867 from nsoranzo/wheels
75df608 Merge pull request #866 from amblina/amblina-patch-1
2f84777 Merge pull request #863 from codeunsolved/fix-libcutils-encoding
Additional commits viewable in compare view

Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting @dependabot rebase.

Dependabot commands and options

You can trigger Dependabot actions by commenting on this PR: - `@dependabot rebase` will rebase this PR - `@dependabot recreate` will recreate this PR, overwriting any edits that have been made to it - `@dependabot merge` will merge this PR after your CI passes on it - `@dependabot squash and merge` will squash and merge this PR after your CI passes on it - `@dependabot cancel merge` will cancel a previously requested merge and block automerging - `@dependabot reopen` will reopen this PR if it is closed - `@dependabot close` will close this PR and stop Dependabot recreating it. You can achieve the same result by closing it manually - `@dependabot ignore this major version` will close this PR and stop Dependabot creating any more for this major version (unless you reopen the PR or upgrade to it yourself) - `@dependabot ignore this minor version` will close this PR and stop Dependabot creating any more for this minor version (unless you reopen the PR or upgrade to it yourself) - `@dependabot ignore this dependency` will close this PR and stop Dependabot creating any more for this dependency (unless you reopen the PR or upgrade to it yourself) - `@dependabot use these labels` will set the current labels as the default for future PRs for this repo and language - `@dependabot use these reviewers` will set the current reviewers as the default for future PRs for this repo and language - `@dependabot use these assignees` will set the current assignees as the default for future PRs for this repo and language - `@dependabot use this milestone` will set the current milestone as the default for future PRs for this repo and language - `@dependabot badge me` will comment on this PR with code to add a "Dependabot enabled" badge to your readme Additionally, you can set the following in your Dependabot [dashboard](https://app.dependabot.com): - Update frequency (including time of day and day of week) - Pull request limits (per update run and/or open at any time) - Automerge options (never/patch/minor, and dev/runtime dependencies) - Out-of-range updates (receive only lockfile updates, if desired) - Security updates (receive only security updates, if desired)

HadrienG / InSilicoSeq

Bump pysam from 0.15.3 to 0.15.4 #146

pysam-v0.15.4

Release 0.15.4

============= Release notes

Codecov Report