Commit Graph
6099 Commits
Author SHA1 Message Date
Peter Rowlands (변기호) 821ec0a934 git: drop scm requirement from backends (#5049)
* git: remove scm from backends, make backends configurable

* git: implement get/set/remove ref in gitpython

* git: support reflog --rewrite for stash

* tests: support testing individual backends in unit/scm/test_git

* stash: create reflog if it does not exist for gitpython backend
2020-12-08 20:37:16 +09:00
OrangeCubeandGary Yuan 6c7eccf5fd remote: fix pull error for large file with aliyun-oss (#5053)
Fixes #5051

Co-authored-by: Gary Yuan <[email protected]>
2020-12-08 13:00:20 +02:00
Peter Rowlands (변기호) b072370efb experiments: handle state where tmp args file was committed to git (#5052)
* git: fix Stash.push args typing

* experiments: handle case where args file was inadvertently committed to
git

* add test for args file being committed to git
2020-12-08 18:10:53 +09:00
Ruslan Kuprieiev c4f92314db repro: remove deprecated --cwd (#5048)
Per https://github.com/iterative/dvc/issues/2988
2020-12-08 03:26:51 +02:00
Victor f09c27e74c update issue template (#4991)
* update issue template

* try to add comments
2020-12-07 13:17:50 +02:00
Saugat Pachhai 529073967e run/repro: show command on dry-run, add ">" to script output (#5041)
* run/repro: show command on dry-run, add ">" to script output

This rollbacks the earlier commit to not show command during
the dry-run, and also prepends ">" in the command script
instead of "$" sign.

* fix tests
2020-12-07 13:16:15 +02:00
Peter Rowlands (변기호) 69eb86a06f experiments: ignore untracked files (#5029)
* git: add reset()

* experiments: exclude untracked files

* experiments: add test for untracked & staged files

* git: support checkout/reset for specific paths to HEAD state

* stage: track changed files when calling checkpoint callback

* experiments: ignore untracked files when generating exp commits

* add tests for dirty lock files

* stage: track uncached outs when generating checkpoints

* experiments: update checkpoints scm handling

* update checkpoints tests
2020-12-04 17:04:45 +09:00
Peter Rowlands (변기호) 9a9f46b2b8 scm/git: add support for resolving experiment names (#5026)
* experiments: move exp ref iterators into .utils

* git: support resolving experiment short names

* update tests

* remove change unrelated to this PR
2020-12-04 15:23:08 +09:00
Ruslan Kuprieiev 5152866634 scm: move logic to gitpython backend (#5022) 2020-12-03 20:25:20 +02:00
Saugat Pachhai f49feddb7f provide a callback to handle error during the stage collection (#5020)
also provide a callable to properly handle error messages
add tests
2020-12-03 19:05:56 +05:45
Clément WalterandRuslan Kuprieiev 94f2a1d3be Allow user to pass a list of commands for one single stage (#4934)
* Allow list type in STAGE_DEFINITION scheme and join(cmd) if list

* Remove join in Stage.__init__ and update test

* Loop over commands in cmd_run

* Improve logging of stage.run with detailed by command

* Fix test based on log message

* Update command logging with >

* Add tests for multi lines command

* Update > to $ in stage command log to prevent confusion with > operator

* Fix PR review about test: single quote and read_text

* tests: unify/clarify tests

Co-authored-by: Ruslan Kuprieiev <[email protected]>
2020-12-03 12:49:30 +02:00
Peter Rowlands (변기호) 8252ae5f3c experiments: enable by default, support no_scm (#5019)
* experiments: enable by default, support no_scm

* mark experiments option obsolete
2020-12-03 10:21:19 +02:00
Saugat Pachhai bb84f5d9e2 Enable parametrization by default (#5018)
* Enable parametrization by default

* Remove a way to disable parametrization

* Add a comment for the feature flag
2020-12-03 10:20:29 +02:00
jwokatyandRuslan Kuprieiev f50f12ad61 hdfs: Replace deprecated pyarrow.hdfs.connect (#4973)
* hdfs: Replace deprecated pyarrow.hdfs.connect

Replace with pyarrow.fs.HadoopFileSystem, which has a different API.

Fixes #4905

* hdfs: fix copy/walk

* hdfs: Remove setting CLASSPATH

* Revert "hdfs: Remove setting CLASSPATH"

This reverts commit 8925a5d1d16ddbfc5e80c9b7974d96abdd4620a5.

Co-authored-by: Ruslan Kuprieiev <[email protected]>
2020-12-02 21:46:35 +02:00
alex lustenberg 7e4966fbe5 increase log level of messages to trace (#5017)
* cache/base - check start, stop, assumed unchanged if RO
* command/base - assumed default
* state - fetched
* utils - assumed default
* utils/fs - path inode
2020-12-02 20:59:04 +02:00
Indhu Kumarandindh8717 2e9fac5fb3 Organize metrics as table (#4706)
* WIP fixes #4621

* changes to all_branch if condition

* flatten_dict changes

* fix one test

* minor changes

* minor changes

* add precision

* tests and added precision to arguments

Co-authored-by: indh8717 <[email protected]>
2020-12-02 19:46:48 +02:00
Ruslan Kuprieiev 2d70bc5ec4 dvc: bump to 1.11.0 1.11.0 2020-12-02 17:47:23 +02:00
Peter Rowlands (변기호) 176a23e291 experiments: store experiments in refs/exps instead of heads (#4910)
* experiments: commit to refs/exps/... instead of branch heads

* update exp show

* restore checkpoint_resume kwarg

* refactor new() to use experiments stash

* experiments: use refspecs to populate and collect executors

* experiments: use new stash and merge on exp checkout

* experiments: fix executor chdir

* experiments: update run and show

* skip checkout after reproduce

* checkpoints: use experiments refspecs

* check if workspace was stashed before applying

* exp show: unify checkpoint/standalone experiment collection

* git: move iter_refs to backend

* update for scm changes

* experiments: replace exp checkout in favor of exp apply

* git: handle rev_parse errors in resolve_commit

* update refs containing and baseline check

* fix sigint handling for checkpoints

* update checkpoint exists behavior

* fix checkpoint baseline behavior

* update tests

* experiments: update gc

* update show tests

* fix type checking errors

* update diff

* scm: add diff, describe

* experiments: generate human readable names

* exp run/resume: allow user specified exp name with -n/--name

* update tests

* experiments: add `exp branch` for promoting experiment to full branch

* fix test

* fix missing file

* experiments: explicitly close scm instances before cleaning up tmp dir
2020-12-02 21:20:57 +09:00
Ruslan Kuprieiev c884c94d61 tree: update hint about missing deps (#5005)
Related to #4997
Fixes #4987
2020-12-01 17:57:55 +02:00
Paweł Redzyński f6f18bc201 plots: make linear and scatter interactive (#4975) 2020-12-01 14:55:30 +01:00
Saugat Pachhai 3a3fa7cdde parametrization: convert bool to string as "true"/"false" (#5004)
Previously, Python's `str()` was being used that
resulted in boolean transformed into "True"/"False".

Fixes #4996
2020-12-01 16:05:18 +05:45
Saugat Pachhai 1e1a0999f6 parametrization: show interpolated vars in params diff (#5002)
* parametrization: show interpolated vars in params diff

* Add test for params.diff

* disable logging duration if feature is not enabled
2020-12-01 15:43:37 +05:45
Ruslan Kuprieiev 7f0537038c dvc: preserve desc on add/run/imp (#5003) 2020-12-01 11:52:31 +02:00
Ruslan Kuprieiev 7c45711e34 dvc: preserve comments/meta on add/imp/run (#5001) 2020-12-01 10:39:51 +02:00
Peter Rowlands (변기호) 1e52bc94a3 git: add support for working with refspecs and stashes (#4952)
* git: add support for dulwich Stash

* git: start adding support for custom refs

* git: add Stash and helper context managers for preserving
workspace state

* scm: cleanup refs/stash and add push_refspec

* tests: add tests for git refs and stash

* fix push_refspec

* tests: add tests for git push_refspec

* scm: add git fetch-refspecs

* add test for fetch refspecs

* scm: add test for git refs containing

* remove extraneous log msgs

* fix typing issues

* stash: only try to push if workspace is dirty

* update dulwich to 0.20.14

* scm: move dulwich into scm.backend

* move stash internals to backends

* scm: move git code into dvc/scm/git/... module

* git: use ABC for BaseGitBackend

* fix rebase issue

* git: fix refspec tests on windows

- git file:// URLs need posix style paths

* git: move get_refs_containing to backend

* scm: add callback for handling diverged refs during fetch
2020-12-01 16:56:50 +09:00
Artem Dudarev 38cbd998e1 dvc: more explict error during init when .dvc is ignored by git (#4978)
* dvc: more explict error during init when .dvc is ignored by git

Fixes #3738

* dvc: address PR feedback

* styling

* styling
2020-11-30 21:00:17 +02:00
Ruslan Kuprieiev 09a88b8ea6 stage: move is_cached logic to Stage.can_be_skipped (#4994)
Having that logic in `create_stage` is unnatural and also has some
side-effects for unsuspecting users. For example, it will check the
filesystem for existing dvcfile and will try to load a corresponding old
stage. I've adjusted it with minimal changes to better reflect the logic
behind it.

Pre-requisite for #4907
2020-11-30 15:11:35 +02:00
Saugat Pachhai bc1d10532a Move Repo.collect and collect_granular to Repo.stage (#4993) 2020-11-30 14:28:16 +05:45
Jorge Orpinel 56322d0a53 cmd: matching help output to docs (#4989)
* cmd: matching help output to docs
per https://github.com/iterative/dvc.org/pull/1971#pullrequestreview-538749492
and https://github.com/iterative/dvc.org/pull/1978#pullrequestreview-540445147

* fetch: simplify help text
per https://github.com/iterative/dvc.org/pull/1978#pullrequestreview-540447055
2020-11-30 09:09:11 +02:00
Saugat Pachhai f4f0554884 repro: support glob/foreach-group to run at once through CLI (#4976)
* repro: support regex/foreach-group to run at once

Fixes #4912
Fixes #4886
Fixes #4958

* Use `tree.isdir` rather than `os.path.isdir`

* Use glob rather than regex

* Update dvc/command/repro.py

* s/regex/glob

* disable glob on `collect_granular`

There's no need for a glob here

* add tests for `collect` and `collect_granular`
2020-11-27 19:13:38 +05:45
Saugat Pachhai 011bd18e9f parametrization: support loading vars partially (#4982) 2020-11-27 19:05:02 +05:45
Saugat Pachhai 6d745eb4f0 s3: use mocked s3 instead of the real one (#4968)
* s3: use mocked s3 instead of the real one

Not removing the fixtures just yet

* Update moto

Tests was failing, because of a change in `responses` package, which
`moto` was mocking. This was fixed on
https://github.com/spulec/moto/pull/3466 which is only available on
`dev122` release.

* Use mocked s3 in checkout tests
2020-11-26 11:30:43 +05:45
Saugat Pachhai 788d840e7d tests/ci: update docker image for Azurite (#4967)
`Azure` tests are flaky for some reason. When I investigated one
of the job [1], something seemed wrong with the Azurite or
the client lib.

On `AzureTree.blob_service`, we do the following to check if the
container exists:
```python
try:
    container_client.get_container_properties()
except ResourceNotFoundError:
    container_client.create_container()
```

When looking at the test log, I found out that the
`get_container_properties` was failing with
`ErrorCode:ContainerNotFound` whereas `create_container`
successively was failing with `ErrorCode:ContainerAlreadyExists`.

`create_container` is correct, but `get_container_properties` is
incorrect, as many of the Azure tests have already run successfully
before.

So, either the Azurite has/had bug or the client lib has a bug.
Anyway, we'll find out after updating the Azurite.

[1]: https://github.com/iterative/dvc/runs/1448864706#step:7:4029
2020-11-25 21:21:00 +02:00
Saugat Pachhai 7586c32d95 Remove libs used in pre-commit to avoid duplication (#4966) 2020-11-25 18:30:28 +05:45
Saugat Pachhai dcba0e8da4 pre-commit: update hooks (#4964) 2020-11-25 17:57:32 +05:45
Saugat Pachhai 1294450a46 parse: parse target correctly for generated stages (#4961) 2020-11-25 16:13:17 +05:45
Ruslan Kuprieiev c989b28eae dvc: bump to 1.10.2 1.10.2 2020-11-24 18:33:49 +02:00
Saugat Pachhai abb78ce19d parametrization: print pretty interpolation errors (#4953)
* parametrization: print pretty interpolation errors

* Fix col/loc in exception msg

* Fix tests
2020-11-24 18:26:26 +05:45
Saugat Pachhai bc4c9fe9ea parametrization: prevent dumping parametrized stages (#4950)
* parametrization: prevent dumping parametrized stages

This is a bit hackish, but does the job done.
It feels like we need some unified way to be able to load
and dump, but not sure how. Till then, this dataclass
will be helpful in communicating between those.

* s/Meta/RawData

* Update dvc/stage/loader.py
2020-11-24 17:40:47 +05:45
Saugat Pachhai d138bdd72a Add mypy config, fix type errors in a few remaining places (#4951)
* Add mypy config, fix type errors in a few random places

* Add typing_extensions

* Use setup.cfg for mypy's config
2020-11-24 14:19:55 +05:45
Saugat Pachhai 7c3c2e8123 Fix typechecking errors - 2 (#4946) 2020-11-24 11:18:11 +05:45
Saugat Pachhai 04c53601c0 types: add types to dvc/tree (#4947) 2020-11-24 11:16:28 +05:45
Saugat Pachhai 3ba70d375e types: fix type errors on dvc.collect (#4948) 2020-11-24 11:16:02 +05:45
Saugat Pachhai 85ad7358d9 types: fix type checking errors in dvc.experiments (#4949) 2020-11-24 07:22:42 +05:45
Saugat Pachhai cb56f57908 Fix typechecking errors around a few places (#4945) 2020-11-23 19:00:45 +05:45
Saugat Pachhai a7a007e4f9 Fix typechecking errors in dvc/repo (#4944) 2020-11-23 17:27:04 +05:45
Saugat Pachhai e33274723d Move flags from tests to config (#4943) 2020-11-23 16:21:24 +05:45
Saugat Pachhai f1efc8f409 tests: increase ulimit to 4096 (#4942) 2020-11-23 11:22:15 +02:00
Saugat Pachhai 1a2c91eb5a Use PathStringTrie consistently (#4941)
This one was missed for some reason.
2020-11-23 12:44:43 +05:45
Saugat Pachhai 806f8032d9 ci: reduce no. of MacOS jobs (#4940)
This was increasing the wait times of the CI.

Also enabled codecov failure to not fail the whole CI pipeline.
2020-11-23 12:12:58 +05:45