Commit Graph
17 Commits
Author SHA1 Message Date
John Chilton e1d0a1d049 Rebuild rst lib structure. 2021-01-11 13:03:57 -05:00
Nicola Soranzo 79210e8ed7 Update application documentation
with:

```
make -C doc/ updaterst
```
2020-12-18 02:37:10 +00:00
mvdbeek 8be1ac07e6 Merge branch 'release_20.01' into dev 2020-05-05 21:04:03 +02:00
mvdbeek f6a79f6341 Rename galaxy.util.logging to galaxy.util.custom_logging
Otherwise there may be import issues:
```
==================================== ERRORS ====================================

________________________ ERROR collecting test session _________________________

.tox/py27-unit/lib/python2.7/site-packages/py/_path/common.py:383: in visit

    for x in Visitor(fil, rec, ignore, bf, sort).gen(self):

.tox/py27-unit/lib/python2.7/site-packages/py/_path/common.py:425: in gen

    if p.check(dir=1) and (rec is None or rec(p))])

.tox/py27-unit/lib/python2.7/site-packages/_pytest/main.py:667: in _recurse

    ihook = self.gethookproxy(dirpath)

.tox/py27-unit/lib/python2.7/site-packages/_pytest/main.py:482: in gethookproxy

    my_conftestmodules = pm._getconftestmodules(fspath)

.tox/py27-unit/lib/python2.7/site-packages/_pytest/config/__init__.py:424: in _getconftestmodules

    mod = self._importconftest(conftestpath.realpath())

.tox/py27-unit/lib/python2.7/site-packages/_pytest/config/__init__.py:463: in _importconftest

    raise ConftestImportFailure(conftestpath, sys.exc_info())

E   ConftestImportFailure: (local('/home/circleci/repo/test/unit/queue_worker/conftest.py'), (<type 'exceptions.AttributeError'>, AttributeError("'module' object has no attribute 'getLogger'",), <traceback object at 0x7fabd96b7eb0>))

----- generated html file: file:///home/circleci/repo/run_unit_tests.html ------

!!!!!!!!!!!!!!!!!!! Interrupted: 1 errors during collection !!!!!!!!!!!!!!!!!!!!

=========================== 1 error in 1.83 seconds ============================

```
2020-05-03 21:50:12 +02:00
Nicola Soranzo addb73c1c4 Update documentation
- Fixes for `interactivetools.rst`
- Run `make updaterst`
2020-05-01 01:20:06 +01:00
Sergey Golitsynskiy df5252c887 Update RST files to reflect code structure changes
Also, clean out obsolete RST files.
2019-07-21 12:42:58 -04:00
Sergey Golitsynskiy 17beaef624 Update Sphinx RST files for lib/
Running sphinx 1.8.5 updates all files (one known update: periods are no
longer escaped)
2019-07-05 17:21:31 +02:00
Nicola Soranzo 57af073813 Update application documentation
with:
```
make -C doc/ updaterst
```

Also fix 2 links in `doc/source/api/guidelines.rst` .
2019-02-20 14:56:21 +00:00
Nicola Soranzo 77706a8e62 Update application documentation
With
```
make -C doc/ updaterst
```
2018-09-03 11:25:42 +01:00
Nicola Soranzo 5ab560068d Update lib documentation
Also simplify updaterst target in doc/Makefile

Partially revert commit b4feb85f11 : re-add
doc/source/lib/galaxy.webapps.galaxy.api.rst and
doc/source/lib/galaxy.webapps.tool_shed.api.rst and include them in
doc/source/api/api.rst and doc/source/api/ts_api.rst respectively to
simplify doc maintenance.
2017-06-02 15:09:44 +01:00
Nicola Soranzo 527e332aa3 Fix a bunch of errors reported by Sphinx 2016-10-24 19:42:19 +01:00
Nicola Soranzo ee0ce040ce Update to sphinx-apidoc v1.3.1 .
sphinx-apidoc -M -o doc/source/lib/ lib/
2015-06-29 15:39:12 +01:00
Nicola Soranzo f339cc1631 Fix doc/source/ using sphinx-apidoc v1.1.3 . 2015-06-29 15:30:49 +01:00
Dave Clements c85177860d Update Sphinx RST structural doc to reflect recent code changes. 2013-01-14 17:01:17 -08:00
Dave Clements a3dac95afc First iteration of updating Sphinx RST files. These describe classes and modules (and ...) and are used to generate the Sphinx code documentation. However, they are not updated automatically.
Add the patch.py to automate some of the RST update process, but it is still pretty brutal.  Look for cleanup in the next few releases.
2012-12-18 13:27:20 -08:00
Dave Clements f39c2cb970 Bringing Sphinx RST files up to date; changing generated doc so all modules are documented, not just galaxy.* 2012-10-31 15:41:13 -07:00
Dannon Baker 1a3a17056e Initial commit of Galaxy Documentation. 2012-06-13 11:31:00 -04:00