Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / Duke-GCB/lando issues and pull requests

#211 - Bump pyyaml from 5.1 to 5.4

Pull Request - State: open - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#210 - Bump jinja2 from 2.10.1 to 2.11.3

Pull Request - State: open - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#209 - Adds config option to specify ssl_ca_cert

Pull Request - State: closed - Opened by johnbradley about 5 years ago - 1 comment

#208 - Jobs with no input files fail to stage data

Issue - State: open - Opened by johnbradley over 5 years ago

#206 - Fix saving logs from failed jobs

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#205 - Update k8s README lando k8s permissions

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#204 - Record error messages from failed k8s jobs

Issue - State: closed - Opened by johnbradley over 5 years ago

#203 - fix restart k8s staging

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#202 - fix exit code error

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#201 - fix exit code None error

Issue - State: closed - Opened by johnbradley over 5 years ago

#200 - use lando-util for VM job

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#199 - use cachedir flag when running a workflow in k8s

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#198 - Use cachedir option when running a workflow on k8s

Issue - State: closed - Opened by johnbradley over 5 years ago

#197 - centralize handling workflow types

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#196 - support for zipped workflows in k8s jobs

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#195 - Restart k8s job in staging step fails

Issue - State: closed - Opened by johnbradley over 5 years ago

#194 - use correct location for finding size in dukeds file resp

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#193 - Error in new DukeDSClient download

Issue - State: closed - Opened by johnbradley over 5 years ago

#192 - upgrade DukeDSClient for s3 support

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#191 - cwltool caching isn't working reliably

Issue - State: closed - Opened by dleehr over 5 years ago - 1 comment

#190 - Adds field for the workflow file to read when loading info

Pull Request - State: closed - Opened by dleehr over 5 years ago - 2 comments

#189 - cwlreport uses badly formed path for packed workflows

Issue - State: closed - Opened by dleehr over 5 years ago

#188 - k8s support non-packed workflows

Issue - State: closed - Opened by dleehr over 5 years ago

#187 - Support non-packed workflows

Pull Request - State: closed - Opened by dleehr over 5 years ago - 2 comments

#186 - Update CircleCI to run nosetests

Pull Request - State: closed - Opened by dleehr over 5 years ago

#185 - Support for un-packed workflows

Issue - State: closed - Opened by dleehr over 5 years ago

#184 - Upload releases to PyPI, verify version matches tag

Pull Request - State: closed - Opened by dleehr over 5 years ago

#183 - Removes cwlref-runner dependency from setup.py

Pull Request - State: closed - Opened by dleehr over 5 years ago

#182 - Fix job cancellation

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#181 - Revisit cwlref-runner dependency

Issue - State: closed - Opened by dleehr over 5 years ago

#180 - Error running workflow

Issue - State: closed - Opened by johnbradley over 5 years ago - 4 comments

#179 - Fix version in setup.py

Issue - State: closed - Opened by dleehr over 5 years ago

#178 - fix job input data gb conversion

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#177 - calculate_input_data_size_in_g returns MiB not GiB

Issue - State: closed - Opened by johnbradley over 5 years ago

#176 - k8s cancel job is canceling all jobs

Issue - State: closed - Opened by johnbradley over 5 years ago

#175 - k8s volume improvements

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#174 - allow configuration of tmp via lando config file

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#173 - populate run workflow pod logs

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#172 - improve k8s calrissian retry processes

Issue - State: open - Opened by johnbradley over 5 years ago

#171 - add usage report to resulting project logs

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#170 - fix k8s output project name to match vm job version

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#169 - Add calrissian argument to write usage report

Pull Request - State: closed - Opened by dleehr over 5 years ago

#168 - k8s job should record provenance data

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#167 - upgrade lando-messaging to fix duplicate share emails

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#166 - k8s save calrissian record usage report

Issue - State: closed - Opened by johnbradley over 5 years ago

#165 - supply labels to k8s workflow runner

Issue - State: open - Opened by johnbradley over 5 years ago
Labels: enhancement

#164 - k8s job output project name different from vm job

Issue - State: closed - Opened by johnbradley over 5 years ago

#163 - add pyasn1 top level requirement

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#162 - ContextualVersionConflict error in lando worker image

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#161 - remove json.load from CWL command parsing

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#160 - TypeError when parsing v2 CWLCommand

Issue - State: closed - Opened by johnbradley over 5 years ago

#159 - pass job cpu/memory to calrissian

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#157 - Use bespin-api v2 for k8s support

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#156 - Record Output Project Details

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#155 - Remove job data placeholder value.

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#153 - k8s restart can fail while job being canceled

Issue - State: open - Opened by johnbradley over 5 years ago - 1 comment

#152 - k8s methods document should not be required

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#151 - Sanitize k8s names

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#150 - k8s - image names, cpu and memory settings from bespin job

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#149 - k8s workflow runner logs are empty

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#148 - Dozens of duplicate d4s2 share emails when keeping VM

Issue - State: closed - Opened by dleehr over 5 years ago - 3 comments

#147 - job name cannot contain the @ symbol

Issue - State: closed - Opened by johnbradley over 5 years ago

#146 - Determine minimal permissions required for k8s lando

Issue - State: closed - Opened by johnbradley over 5 years ago

#145 - k8s watcher

Pull Request - State: closed - Opened by johnbradley over 5 years ago - 2 comments

#144 - Improve output documentation filenames

Issue - State: open - Opened by johnbradley over 5 years ago
Labels: enhancement

#143 - k8s record job run time and file info

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#142 - k8s record output project id and readme file id

Issue - State: closed - Opened by johnbradley over 5 years ago - 2 comments

#141 - Improve k8s volume size calculations

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#140 - k8s job manager changes

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#139 - Run workflow via kubernetes jobs

Pull Request - State: closed - Opened by johnbradley over 5 years ago

#138 - k8s SaveOutput step returned values

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#137 - support for external cloud providers

Issue - State: closed - Opened by johnbradley over 5 years ago - 4 comments

#136 - pyyaml vulnerability

Issue - State: closed - Opened by johnbradley over 5 years ago - 1 comment

#135 - update requests to 2.20.1

Pull Request - State: closed - Opened by johnbradley almost 6 years ago

#134 - Changes to handle workflows without a methods document

Pull Request - State: closed - Opened by johnbradley almost 6 years ago

#133 - Methods document should be optional

Issue - State: closed - Opened by johnbradley almost 6 years ago - 1 comment

#132 - Switch to PyYAML 3.12 for compat with openstacksdk

Pull Request - State: closed - Opened by dleehr almost 6 years ago

#131 - openstacksdk requires PyYAML>=3.12, base image has 3.11

Issue - State: closed - Opened by dleehr almost 6 years ago

#130 - Upgrades to python3 and lando-messaging 0.7.4

Pull Request - State: closed - Opened by johnbradley almost 6 years ago

#129 - Upgrade to python3

Issue - State: closed - Opened by johnbradley almost 6 years ago - 2 comments

#128 - Configure lando worker to force sending shares

Pull Request - State: closed - Opened by dleehr about 6 years ago

#127 - Update share_project to force send

Issue - State: closed - Opened by dleehr about 6 years ago

#126 - server: record_output_project_info() fails with Bad Request

Issue - State: closed - Opened by dleehr about 6 years ago - 2 comments

#125 - Writes CWL logs to /work and passes along logging config

Pull Request - State: closed - Opened by dleehr about 6 years ago

#124 - Reconfigures CWL subprocess to log to local files

Pull Request - State: closed - Opened by dleehr about 6 years ago

#123 - Generate a simple table indicating software versions

Issue - State: open - Opened by dleehr about 6 years ago - 2 comments

#122 - better handle restart after failed terminate VM

Pull Request - State: closed - Opened by johnbradley about 6 years ago - 1 comment

#121 - switch to PyYAML 3.11

Pull Request - State: closed - Opened by johnbradley about 6 years ago

#120 - Upgrade DukeDSClient for faster downloading

Issue - State: closed - Opened by johnbradley about 6 years ago - 3 comments

#118 - Restarting jobs in step `T` fails with AttributeError

Issue - State: closed - Opened by dleehr about 6 years ago

#110 - Underscores in generated markdown should be escaped

Issue - State: open - Opened by dleehr over 6 years ago

#103 - Compare performance of CWL implementations

Issue - State: open - Opened by dleehr almost 7 years ago - 19 comments
Labels: cwl-engine

#102 - cwltoil - failed jobs leave no usable intermediate files

Issue - State: closed - Opened by dleehr almost 7 years ago - 1 comment
Labels: cwl-engine

#100 - Uploaded results still have dozens of empty tmp directories

Issue - State: closed - Opened by dleehr almost 7 years ago - 2 comments
Labels: cwl-engine

#91 - Restarting a workflow that ran with cwltoil fails if jobstore exists

Issue - State: closed - Opened by dleehr almost 7 years ago - 4 comments
Labels: cwl-engine

#46 - Parse relevant workflow messages out of toil logs

Issue - State: closed - Opened by dleehr about 7 years ago - 2 comments
Labels: cwl-engine