Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / galaxyproject/planemo issues and pull requests
#1481 - Fix repository category update
Pull Request -
State: closed - Opened by mvdbeek 7 days ago
- 3 comments
#1480 - New toolshed categories are not updating for the existing tools
Issue -
State: closed - Opened by pavanvidem 8 days ago
- 14 comments
#1479 - [Feature request] Use a TRS ID instead of a file for Planemo Run
Issue -
State: open - Opened by Delphine-L 13 days ago
#1478 - planemo autoupdate may fail on tools but exit code is 0
Issue -
State: open - Opened by lldelisle about 1 month ago
#1477 - Don't assume default master key works
Pull Request -
State: open - Opened by mvdbeek about 1 month ago
- 1 comment
#1476 - planemo's configuration of bioblend's api key prevents running commands without authentication that don't require it
Issue -
State: open - Opened by hexylena about 1 month ago
- 4 comments
#1475 - Synchronize with Galaxy Post 24.2 Publication
Issue -
State: open - Opened by jmchilton about 1 month ago
- 1 comment
#1474 - Fix up autopygen type annotation
Pull Request -
State: closed - Opened by mvdbeek about 1 month ago
#1473 - Display last lines of logs
Pull Request -
State: closed - Opened by mvdbeek 3 months ago
#1472 - Rewrite tool linters defined in planemo
Pull Request -
State: open - Opened by bernt-matthias 3 months ago
Labels: help wanted
#1471 - add extended-assertions requirements
Pull Request -
State: closed - Opened by bernt-matthias 4 months ago
#1470 - Pin galaxy-tool-util to >=24.0.2
Pull Request -
State: closed - Opened by nsoranzo 4 months ago
- 1 comment
#1469 - Planemo error upload1
Issue -
State: open - Opened by marieBvr 4 months ago
#1468 - Planemo test : Failed to install Galaxy via command
Issue -
State: closed - Opened by marieBvr 4 months ago
- 1 comment
#1467 - use target_str_to_targets from tool-util package
Pull Request -
State: open - Opened by bernt-matthias 4 months ago
#1466 - Run CI tests against newer Galaxy versions
Pull Request -
State: closed - Opened by bernt-matthias 4 months ago
#1465 - Check lint skip types only for tool linting
Pull Request -
State: closed - Opened by bernt-matthias 4 months ago
- 3 comments
#1463 - Increase worflow linting
Pull Request -
State: closed - Opened by lldelisle 4 months ago
- 17 comments
#1462 - Add option to create a minimal markdown test report
Pull Request -
State: closed - Opened by bernt-matthias 4 months ago
- 4 comments
#1461 - Add the option to provide a history id to run the workflow in
Pull Request -
State: closed - Opened by Delphine-L 4 months ago
#1460 - Update pinning for Galaxy 24.1
Pull Request -
State: closed - Opened by bernt-matthias 4 months ago
- 3 comments
#1459 - Search function on readthedocs is not Working
Issue -
State: closed - Opened by Delphine-L 4 months ago
#1458 - Workflow best practices: check that creator identifiers are URIs
Pull Request -
State: closed - Opened by elichad 4 months ago
- 1 comment
#1457 - Add a new single cell category
Pull Request -
State: closed - Opened by pavanvidem 4 months ago
- 2 comments
#1456 - `test_reports` add possibility to output minimal markdown output
Issue -
State: closed - Opened by bernt-matthias 4 months ago
#1455 - Galaxy upload tool fails when using planemo server on galaxy release branch 24.0
Issue -
State: closed - Opened by richard-burhans 5 months ago
- 4 comments
#1454 - Remove myself from committer list
Pull Request -
State: closed - Opened by simonbray 5 months ago
- 1 comment
#1453 - Make sure that skip list does not get `['']` (if no skip is given)
Pull Request -
State: closed - Opened by bernt-matthias 5 months ago
- 3 comments
#1452 - Fix autoupdate for workflows with overlapping tool updates
Pull Request -
State: closed - Opened by bernt-matthias 5 months ago
- 2 comments
#1451 - add assertion that autoupdate does not modify input description
Pull Request -
State: open - Opened by bernt-matthias 5 months ago
#1450 - Install prebuilt client by default
Pull Request -
State: closed - Opened by mvdbeek 6 months ago
#1449 - Return inputs ID in --test_output_json outputs
Issue -
State: open - Opened by Delphine-L 6 months ago
#1448 - Allow planemo run to send invocation to an existing history
Issue -
State: closed - Opened by Delphine-L 6 months ago
- 1 comment
#1447 - replace dead link in conclusions
Pull Request -
State: closed - Opened by martenson 7 months ago
#1446 - replace dead docs link
Pull Request -
State: closed - Opened by martenson 7 months ago
#1445 - Implement run/test/workflow_edit/autoupdate from non default tool sheds
Pull Request -
State: closed - Opened by mvdbeek 7 months ago
#1444 - Add text to autopygen exceptions
Pull Request -
State: closed - Opened by bernt-matthias 7 months ago
#1443 - Drop circleci config
Pull Request -
State: closed - Opened by mvdbeek 7 months ago
- 1 comment
#1442 - Fix linting of asserts with children
Pull Request -
State: closed - Opened by bernt-matthias 7 months ago
#1441 - Bump galaxy packages to allow for 24.0
Pull Request -
State: closed - Opened by bernt-matthias 7 months ago
#1440 - Fix markdown template: add missing closing details tag
Pull Request -
State: closed - Opened by bernt-matthias 7 months ago
- 4 comments
#1439 - Fix parsing of training ``metadata.yaml`` files
Pull Request -
State: closed - Opened by nsoranzo 7 months ago
- 2 comments
#1438 - Use proper tmpdir for jobfiles
Pull Request -
State: open - Opened by bernt-matthias 8 months ago
- 2 comments
#1437 - Misc workflow linting improvements
Pull Request -
State: closed - Opened by bernt-matthias 8 months ago
#1436 - Test against existing invocation
Issue -
State: closed - Opened by bernt-matthias 8 months ago
- 1 comment
#1435 - Allow initializing workflows from failed invocations
Issue -
State: open - Opened by bernt-matthias 8 months ago
#1434 - Addition of metadata generation for planemo run
Pull Request -
State: open - Opened by Delphine-L 8 months ago
- 3 comments
#1433 - Don't skip requirements with an environment marker
Pull Request -
State: closed - Opened by nsoranzo 8 months ago
#1432 - autopygen: missing module stdlib-list
Issue -
State: closed - Opened by thorstenwagner 8 months ago
- 2 comments
#1431 - Output files detected with size 0 on planemo tests
Issue -
State: open - Opened by pcm32 9 months ago
- 2 comments
#1430 - Add `--host` parameter to allow listening on non-default hosts
Pull Request -
State: closed - Opened by selten 9 months ago
#1429 - Planemo serve: --host not utilised
Issue -
State: closed - Opened by selten 9 months ago
- 1 comment
Labels: bug
#1428 - Add option to pass extra arguments to `docker run`
Pull Request -
State: closed - Opened by bernt-matthias 9 months ago
- 6 comments
#1427 - Fix workflow_edit
Pull Request -
State: closed - Opened by mvdbeek 9 months ago
- 1 comment
#1426 - Improve docs with regards to running and testing workflows
Pull Request -
State: open - Opened by wm75 9 months ago
- 7 comments
#1425 - Update to black 2024 stable style
Pull Request -
State: closed - Opened by nsoranzo 9 months ago
#1424 - Fix use of `package_name` attribute on `CondaTarget` objects
Pull Request -
State: closed - Opened by nsoranzo 9 months ago
- 4 comments
#1423 - Input staging problem: History not found
Issue -
State: open - Opened by bernt-matthias 10 months ago
#1422 - Don't crash autoupdate on non-PEP440-compliant tool versions
Pull Request -
State: closed - Opened by nsoranzo 10 months ago
#1421 - planemo lint fails with lxml version 5.0.0
Issue -
State: closed - Opened by patrick-austin 10 months ago
- 3 comments
#1420 - Tool linting add `--skip_file` and remove lxml schema validation
Pull Request -
State: closed - Opened by bernt-matthias 11 months ago
- 1 comment
#1419 - Add now mandatory readthedocs config files
Pull Request -
State: closed - Opened by nsoranzo 11 months ago
- 1 comment
#1418 - readthedocs is out of date
Issue -
State: closed - Opened by lldelisle 11 months ago
#1417 - Validate with jsonschema
Pull Request -
State: open - Opened by mvdbeek 11 months ago
- 1 comment
#1416 - Update action versions
Pull Request -
State: closed - Opened by nsoranzo 11 months ago
- 1 comment
#1415 - planemo training_init creates maintainers not editorial_board
Issue -
State: closed - Opened by patrick-austin 11 months ago
- 2 comments
#1414 - planemo test_workflow with list:list collections
Issue -
State: closed - Opened by lldelisle 11 months ago
- 1 comment
#1413 - planemo lint workflow tests improvement
Issue -
State: open - Opened by lldelisle 11 months ago
#1412 - Fix workflow download when using instance id
Pull Request -
State: closed - Opened by mvdbeek 11 months ago
#1411 - planemo lint multiple
Issue -
State: open - Opened by lldelisle 12 months ago
#1410 - Remove introduction header from training init
Pull Request -
State: closed - Opened by hexylena 12 months ago
#1409 - Uploading/mirroring of test data
Issue -
State: open - Opened by mvdbeek 12 months ago
- 1 comment
#1408 - Pretty-print workflow and use correct version of linked workflow in ``workflow_test_init``
Pull Request -
State: closed - Opened by mvdbeek 12 months ago
- 1 comment
#1407 - Fix running workflow tests when there are multiple tests
Pull Request -
State: closed - Opened by mvdbeek 12 months ago
- 3 comments
#1406 - Fix matching of tool ids to autoupdate
Pull Request -
State: closed - Opened by nsoranzo 12 months ago
#1405 - Cheetah parsing error of variable on Galaxy execution when planemo tests using the same variable pass
Issue -
State: closed - Opened by pcm32 12 months ago
- 1 comment
#1404 - planemo autoupdate workflows improvements
Issue -
State: open - Opened by lldelisle 12 months ago
#1403 - planemo autoupdate report bug
Issue -
State: closed - Opened by lldelisle 12 months ago
- 2 comments
#1402 - Fix test result download
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
#1401 - Implement running tests against existing invocation
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
- 1 comment
#1400 - Make test reports more resilient to failing invocations
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
#1399 - Fix zenodo test, drop explicit datatype mapping
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
- 2 comments
#1398 - Change info message for markdown readme in repo
Pull Request -
State: closed - Opened by bernt-matthias about 1 year ago
- 5 comments
#1397 - Add missing ``Astronomy``, ``CLIP-seq`` and ``Materials science`` TS categories
Pull Request -
State: closed - Opened by bernt-matthias about 1 year ago
#1396 - Fix linting rule selection
Pull Request -
State: closed - Opened by bernt-matthias about 1 year ago
#1395 - Fix workflow_lint for json output values
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
#1394 - add --skip to shed_lint
Pull Request -
State: closed - Opened by bernt-matthias about 1 year ago
#1393 - Remove API key requirement from training_init
Pull Request -
State: closed - Opened by hexylena about 1 year ago
#1392 - planemo should catch when Python isn't there
Issue -
State: open - Opened by jmchilton about 1 year ago
- 1 comment
#1391 - Try to fix planemo test workflow when output is collection with identical name
Pull Request -
State: closed - Opened by lldelisle about 1 year ago
- 7 comments
#1390 - planemo serve breaks with new docker version when running tools
Issue -
State: open - Opened by pcm32 about 1 year ago
- 5 comments
#1389 - Track subworkflow invocations after main invocation is scheduled
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
#1388 - Update upper bound for galaxy packages to < 23.2
Pull Request -
State: closed - Opened by bernt-matthias about 1 year ago
- 15 comments
#1387 - Support for testing workflows with conditional steps
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
- 2 comments
#1386 - Sync planemo and planemo virtual appliance docs
Pull Request -
State: open - Opened by bernt-matthias about 1 year ago
#1385 - Add pick_value to distro_tools
Pull Request -
State: closed - Opened by mvdbeek about 1 year ago
#1384 - Allow missing conda_exec
Pull Request -
State: closed - Opened by mstabrin about 1 year ago
- 1 comment
#1383 - Fix profile version test
Pull Request -
State: closed - Opened by bernt-matthias about 1 year ago
#1382 - Fix type comparisons
Pull Request -
State: closed - Opened by bernt-matthias over 1 year ago
#1381 - Run galaxy with default tools included
Pull Request -
State: closed - Opened by bernt-matthias over 1 year ago
- 5 comments