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167 Commity (aa57e01d241ffbb93cb15a3d36971a9f6946170a)

Autor SHA1 Wiadomość Data
YuviPanda 685c8a0544 Satisfy black 2022-01-04 18:34:33 +05:30
YuviPanda fd6314d07d Solidify logic for picking rspm vs mran 
- MRAN doesn't seem to have R 4.1 specific snapshots, so let's
  default to RSPM for anything 4.1+.
- Otherwise, snapshot dates in 2022 will result in using rspm
 2022-01-04 18:30:39 +05:30
Anton Akhmerov 8db656d1ce
always unpack a single zenodo zip 2021-07-06 15:18:42 +02:00
Simon Li 4ed6685dc9 Fix unit tests 2021-07-02 12:43:58 +01:00
Simon Li 9ac8a8314c Handle attrs["State"]["ExitCode"] 2021-07-02 12:42:10 +01:00
Mridul Seth 3edc76342c Fix regression in hydroshare introduced after moving to requests 2021-04-01 15:31:19 +02:00
Min RK ebf640cb84 implement entrypoint in Python 
- make sure to set PYTHONUNBUFFERED
- implement tee with subprocess readlines
- forward all relevant signals from entrypoint to 'true' command
- add monitor process to ensure child shuts down if parent does (maybe not useful in docker?)
 2021-02-17 16:13:42 +01:00
Min RK e862630ee1
Merge pull request #1008 from betatim/missing-logs 
Investigating the missing logs
 2021-02-17 10:23:11 +00:00
Mridul Seth 0885204a5d fix dataverse regression introduced in last release 2021-02-11 21:58:21 +01:00
Tim Head 6e372b5bc9 Extreme measures 2021-01-28 09:17:34 +01:00
Simon Li cb4621f254
Merge pull request #987 from betatim/stream-logs 
[MRG] Stream jupyter server logs to a file
 2021-01-27 17:08:17 +00:00
Tim Head 1140dd1919
Merge pull request #988 from douardda/swhid 2021-01-26 13:56:29 +01:00
Tim Head 45229ad613
Merge pull request #1001 from manics/fix_figshare_test 2021-01-20 11:20:13 +01:00
David Douard e54c24ce2e Add support for the SWHID content provider 
This content provider allows to retrieve the content from a
Software Heritage (SWH) persistent identifier (SWHID).
Typical usage:

  repo2docker swh:1:rev:94dca98c006b80309704c717b5d83dff3c1fa3a0

It uses the SWH public vault API to retrieve the content of the given
directory.

Most of the times, this will not need an authentication
token to bypass the rate-limiting of the SWH API.
Without authentication, one should be allowed to retrieve one
directory content per minute.

If this is not enought, then the user must use authenticated calls to
the SWH API.

For this, a new `swh_token` config item has been added to the Repo2Docker
application class.

To use authentication:

  repo2docker --config cfg.json swh:1:rev:94dca98c006b80309704c717b5d83dff3c1fa3a0

with the swh_token config option being defined in the cfg.json config file.
 2021-01-19 18:04:46 +01:00
David Douard 830a9c89c0 Replace urllib by requests in contentproviders 
requests is globally simpler to use, and more and more people
are more familiar with this later than urllib.
 2021-01-18 17:29:53 +01:00
Simon Li 5e6aa2aa9b Mark failing figshare tests as xfail 2021-01-09 11:36:12 +00:00
Simon Li bcc97a2382 Bug in figshare? 
It looks like the new figshare redirects may drop the version suffix causing two tests to fail (see the test comments).
 2021-01-08 23:48:58 +00:00
Tim Head f2ed09bdfb Ensure output arrives on stderr 2020-11-26 14:53:31 +01:00
paugier 05002a4177 hg-evolve required for Mercurial support (simpler) 2020-09-14 14:05:52 +02:00
paugier 39081b70c3 Fix bug hg id topic 2020-09-11 00:36:28 +02:00
paugier 64633bbcbc Documentation about Mercurial support 2020-09-11 00:10:55 +02:00
paugier 3cdde89328 By default run Mercurial tests + enable the topic extension from code (no need for config file) 2020-09-10 21:48:46 +02:00
paugier 5bb586931b Mercurial optional 2020-09-10 07:58:21 +02:00
paugier c91ed4eec5 Mercurial: remove conditions for py3.5 + requirements only in setup.py 2020-09-08 10:09:13 +02:00
paugier fc3cef16a1 Fix test_mercurial.py (black, node_id and git->hg) 2020-09-07 09:51:30 +02:00
paugier 2d2e9bf19a Skip Mercurial for Python 3.5 2020-09-07 09:38:07 +02:00
paugier e520b900bf Add a Mercurial contentprovider 
MyBinder could support Mercurial repositories

See https://github.com/jupyterhub/binderhub/issues/1148
 2020-09-04 15:14:04 +02:00
Min RK 5179447aea
Merge pull request #928 from gesiscss/configdirtest 
little improvement for testing binder_dir
 2020-08-17 10:24:10 +02:00
Tim Head 4e3016981d Unrecognised and invalid lines don't disable optimisation 
Lines in requirements files that we don't recognise or are syntax errors
do not disable our "optimised" build process.
 2020-08-17 08:01:20 +02:00
Tim Head a7ab636441 Add additional test cases and robuster parsing 2020-08-13 14:29:50 +02:00
Tim Head 6d2b129ed8 Handle requirements.txt with `--pre` lines 
This is a global flag which our inspection of requirements.txt files
should ignore as it doesn't imply a local reference.
 2020-08-13 14:00:16 +02:00
Min RK 60555b1d05 update repo URLs for jupyterhub/repo2docker 2020-08-10 09:33:05 +02:00
Simon Li 72fbd65649 validate_image_name: mention lowercase, fix formatting 2020-07-27 20:32:34 +01:00
Kenan Erdogan 00ec28441d merge similar test cases and use equal instead of in 2020-07-08 17:58:30 +02:00
Tim Head df77a99ce1 Make the memory limit test simpler 
Instead of checking that a build which allocates too much memory does
fail, we now only check that we pass the correct arguments to the Docker
API client. It seems reasonable to rely on the docker client working and
doing the right thing. This solves a problem where our CI is flakey
because the kernel of the VM the tests run on doesn't support this.
 2020-06-12 19:03:48 +02:00
Tim Head bbc3ee02c0
Merge pull request #882 from hwine/GH-881_make_macOS_docker_work 2020-04-27 16:20:20 +02:00
Hal Wine 69f4663700 Fix test_env.py 
This works around an issue where the temp directory can not be added to
Docker. In this case, the directory is immediately deleted, and does not
occupy significant disk space. There should be no impact to the move.
 2020-04-22 21:33:13 -07:00
Hal Wine a09e523fd4 Expand test cases to cover current Docker handling 
Examination of docker's handling showed a few additional cases were
needed.
 2020-04-19 16:44:06 -07:00
Hal Wine 6f59fdb20f Refactor to eliminate need for volume mount 
This change allows, imo, the test to be clearer, and should also speed
up the test.
 2020-04-19 16:41:11 -07:00
Hal Wine af5d9c7129 Add failing test for bare env argument value 2020-04-18 09:59:35 -07:00
Tim Head 27bca4a351 Add reported failing spec 2020-03-27 15:32:00 +01:00
Tim Head 110d34d041 Improve handling of pip arguments when detecting local dependencies 2020-03-27 15:28:19 +01:00
Tim Head 5ef65f9806 Formatting changes only 2020-03-27 15:15:14 +01:00
Tim Head 26542dfc85
Merge pull request #851 from manics/mran-latest 
[MRG] If looking for latest MRAN URL try earlier snapshots too
 2020-02-24 10:19:09 +01:00
Simon Li 6a07a48b2d Test R latest MRAN date handling 2020-02-22 11:29:59 +00:00
Simon Li 39f6fc2790 unit test for utils.execute_cmd no EOL 2020-02-16 14:26:54 +00:00
Scott Black 02d0107510 Merge remote-tracking branch 'upstream/master' into hydroshare-content-provider 2020-01-29 10:14:01 -07:00
Tim Head 4598a08ff9 Remove a test of legacy buildpack 2020-01-25 07:42:14 +01:00
Tim Head 9cfdb9b5f4 Add test for deprecated legacy buildpack 
Tests that the legacy buildpack raises exceptions when it is triggered.
 2020-01-25 07:35:00 +01:00
Scott Black 0c15cb1251 cleanup tests and formatting 2019-12-07 13:34:49 -07:00
Scott Black cb7bb0bb43 remove test parameterization and use fix regex match 2019-12-06 17:36:50 -07:00
Scott Black 776d538689 update tests and code to follow best practices pointed out in review 2019-12-06 16:31:59 -07:00
David Brochart 56e6c116f3 Add test 2019-11-05 18:01:06 +01:00
Scott Black d657453b3f update hydroshare version fetch to assume timestamp is in utc 2019-10-01 11:16:34 -06:00
Scott Black dddc45acfb reformatting with lint 2019-09-30 13:50:24 -06:00
Scott Black 21e61f3099 add hydroshare resource versioning and raise exception fetch fails 2019-09-25 14:37:19 -06:00
Scott Black d89f3a66aa update hydroshare content provider to doi and add tests 2019-09-25 09:59:44 -06:00
Tim Head bfbec349c2
[MRG] Add support for installing different versions of R (#772) 
[MRG] Add support for installing different versions of R
 2019-09-18 08:15:11 +02:00
Kacper Kowalik (Xarthisius) 4df4fd6ab4
Download individual files instead of zip bundle 2019-09-17 15:44:56 -05:00
Kacper Kowalik (Xarthisius) a2f8228b15
Match DV hosts based on netloc instead of url 2019-09-16 15:03:12 -05:00
Kacper Kowalik (Xarthisius) 8edafd0d07
Add tests 2019-09-13 13:42:41 -05:00
Daniel Nüst a40e1799bd fix content_id for Figshare 2019-09-11 13:45:16 +02:00
Daniel Nüst f1ec646d2e add support for Figshare versions > 9 2019-09-11 13:18:20 +02:00
Daniel Nüst 698b8a1d7e try to improve test coverage 2019-09-11 13:17:48 +02:00
Daniel Nüst b2b75600c0 handle versions in Figshare properly 2019-09-09 08:37:02 +02:00
Daniel Nüst b2b6030492 initialize hosts as instance variable 2019-09-08 21:39:48 +02:00
Tim Head d8c8259343 Raise exception for unsupported R versions 2019-09-08 17:19:50 +02:00
Daniel Nüst e6cd4b19d9 reuse hosts definition in Zenodo tests 2019-09-08 14:51:17 +02:00
Daniel Nüst 0e4029bb8d add Figshare content provider 
moving common functions to a DoiProvider
 2019-09-08 14:51:17 +02:00
Min RK f47acaa1bd use getpass.getuser instead of os.getlogin 
os.getlogin doesn't work everywhere (can raise OSError, inappropriate ioctl for device)
 2019-09-08 11:54:22 +02:00
Tim Head eae42740b6 Add tests for R version handling 2019-09-08 07:25:10 +02:00
Min RK 8ef5faa2ab
Merge pull request #779 from nuest/docker_daemon_logmessage 
add explicit log message on failing Docker connection
 2019-09-07 14:07:03 +02:00
Min RK 4f428c3055
Merge pull request #681 from Xarthisius/abspath_in_scripts 
[MRG] Allow absolute paths in build_script_files. Fixes #673
 2019-09-07 12:33:14 +02:00
Daniel Nüst b3f82db558 exit and show clean error message (no log) if docker connection fails 2019-09-07 12:16:41 +02:00
Daniel Nüst c8cd3269c0 add explicit log message on failing Docker connection, see #774 2019-09-07 09:22:00 +02:00
GeorgianaElena 75f4a70fec Black refactor 2019-08-30 11:26:48 +03:00
GeorgianaElena 5e4932b704 Added test for open_guess_encoding 2019-08-30 11:06:53 +03:00
Samnan Rahee 6efe82b9b7 rewrite /test/units/test_semver.py using @pytest.mark.parametrize fixes #615 2019-08-02 15:08:43 +06:00
Tim Head e24e5d91ca Add test for R buildpack's get_preassemble_script_files 2019-07-23 18:23:30 +02:00
Min RK 009d09815a test local pip requirements 2019-07-18 14:40:17 +02:00
Kacper Kowalik (Xarthisius) f80fb4b39b
Handle root user case more gracefully. Fixes #696 
If user_id is root, exit only from cmdline. Raise exception if r2d was
invoked as a library.
 2019-06-28 11:46:01 -05:00
Kacper Kowalik (Xarthisius) 24234d9365
Allow absolute paths in build_script_files. Fixes #673 2019-06-28 08:44:11 -05:00
Tom Morrell 93147888c5 Reformatting and better tests 2019-06-20 13:22:17 -07:00
Tom Morrell 6d785404fb Typo 2019-06-19 08:38:24 -07:00
Tom Morrell 55b19b8369 Typo 2019-06-18 15:30:37 -07:00
Tom Morrell 87f33e3b6a Full generalization and support for CaltechDATA 2019-06-18 15:11:06 -07:00
Tim Head 8b004e06dc Apply auto formatting 
Apologies to anyone finding this commit via git blame or log

run the autoformatting by

    pre-commit run --all-files
 2019-06-03 21:37:25 +02:00
Tim Head 363c962efd Add a urlopen helper to Zenodo content provider 
Use a helper function to inject a default user-agent header into every
request we make.
 2019-05-29 22:27:09 +02:00
Tim Head 8fe9c71826 Mock urlopen calls during Zenodo tests 2019-05-29 22:27:09 +02:00
Tim Head ec8659e62f Add tests for Zenodo content provider 2019-05-29 22:27:09 +02:00
Tim Head 02e0de8717 Add test that default username is picked 2019-05-23 09:45:28 +02:00
Kacper Kowalik (Xarthisius) caef6686d1
Do not try to build the image with root as the primary user 
Fixes #267 and #395
 2019-05-09 13:06:02 -05:00
Tim Head e66f0af23c
Revert "[MRG] Do not try to build the image with root as the primary user." 2019-05-09 13:14:32 +02:00
Kacper Kowalik (Xarthisius) 7d948bda8d
Do not try to build the image with root as the primary user 
Fixes #267 and #395
 2019-05-08 14:55:43 -05:00
Tim Head 032baf6d04 Add check to `build()` for memory limit type 2019-05-08 14:23:43 +02:00
Tim Head 9f44075839 Fix cache-from tests to pass memory limit as integer 2019-05-08 13:20:10 +02:00
Tim Head 92d69010c7
Merge pull request #652 from betatim/fix-memory-limit 
[MRG] Fix handling of memory limit command line argument
 2019-04-30 21:34:52 +02:00
yuvipanda c0a33b340b Add test for integral --build-memory-limit 2019-04-30 10:46:09 -07:00
Joseph Hamman 6de4c5ea6b add unit tests for binder dir 2019-04-30 08:35:58 -07:00
David Hoese ec6973c5fd
Fix git submodule test sha comparison 2019-04-08 08:26:44 -05:00