Nicola Soranzo 39c0000c1b Bump minimum pip version to 20.3 . Ignore `--replace-pip and --no-replace-pip` startup options ...

Pip 20.3 added support for PEP 600, i.e. manylinux wheels using platform
tags of the form "manylinux_${GLIBCMAJOR}_${GLIBCMINOR}_${ARCH}". Fix
installation of dependencies like pysam 0.20.0 wheels, which otherwise need
to be built from source and can fail as reported by @assuntad23 in
https://gist.github.com/assuntad23/3022db63a6878f044a209961dd40e592

Also:
- Install `wheel` to fix warning like `Using legacy setup.py install for
  beaker, since package 'wheel' is not installed.`
- Drop unnecessary `defaults` channel from conda commands.
- Fix "SC2223: This default assignment may cause DoS due to globbing. Quote
  it." errors reported by `shellcheck -x` .

2023-01-17 15:01:38 +00:00

..

special_topics

Update doc/source/admin/special_topics/interactivetools.rst

2022-12-19 12:52:42 -05:00

_inc_proxy_prereq.rst

Attempt to reduce duplication in the proxy documentation through the use

2018-01-12 16:44:40 -05:00

_inc_proxy_serving_root.rst

Update documentation for proxying gunicorn with nginx

2022-02-23 19:52:07 +01:00

_inc_proxy_ssl.rst

Attempt to reduce duplication in the proxy documentation through the use

2018-01-12 16:44:40 -05:00

apache.md

Merge branch 'release_22.01' into dev

2022-04-08 10:13:24 +02:00

authentication.md

Improve wording based on PR comments

2023-01-09 15:16:40 +01:00

cluster.md

Reword dependencies in Batch job runner doc

2022-08-18 12:42:39 -07:00

conda_faq.rst

A few more updates to the tool deps documentation

2021-06-07 20:54:23 -04:00

config_logging.rst

Doc fixes

2022-08-19 18:33:20 +01:00

config.rst

Display 'Config Options' as subheading of 'Galaxy Configuration'

2022-09-27 15:03:03 -04:00

db_migration.md

Document use of release tags in manage_db.sh

2022-09-30 10:42:01 -04:00

dependency_resolvers.rst

A few more updates to the tool deps documentation

2021-06-07 20:54:23 -04:00

framework_dependencies.rst

Bump minimum pip version to 20.3 . Ignore `--replace-pip and --no-replace-pip` startup options

2023-01-17 15:01:38 +00:00

galaxy_options.rst

Rebuild config including gravity stuff

2022-12-22 21:25:41 -05:00

index.rst

Merge branch 'release_22.05' into dev

2022-10-11 21:34:31 +01:00

jobs.md

changed references from sample XML to sample YML

2022-11-30 14:50:19 -05:00

migrating_to_gunicorn.md

Drop last references to uWSGI

2022-03-22 14:31:08 +00:00

mq.md

Update Celery and Kombu links

2022-05-06 13:29:14 +01:00

nginx.md

Merge branch 'release_22.01' into release_22.05

2022-08-16 23:25:42 +01:00

options.rst

yaml_config - Add RST docs for Galaxy options.

2017-12-06 20:28:20 -05:00

production.md

move to new top level category

2022-07-01 17:33:13 +02:00

proxy_package_layout.rst

Drop remaining references to uWSGI

2022-03-21 13:44:37 +01:00

python.md

Also update python.md for minium python version (3.7)

2022-03-15 15:23:39 +01:00

reports_options.rst

Remove old WSGI middleware that is no longer useful.

2022-11-10 05:28:24 -05:00

reports.rst

Drop uWSGI from Galaxy Reports documentation

2022-02-18 01:44:33 -05:00

scaling.md

Merge branch 'release_22.01' into release_22.05

2022-09-09 17:12:29 +01:00

security.md

Update doc/source/admin/security.md

2022-10-13 13:53:06 +02:00

tool_panel.rst

Fix Tool Shed link

2022-09-09 17:20:24 +01:00

useful_scripts.rst

reword topic

2017-03-16 15:55:17 -04:00