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@dennishendriksen dennishendriksen released this Jan 23, 2019

Configure walltime, memory, nodes, ppn, queue per protocol

Assets 4

@pneerincx pneerincx released this Aug 10, 2017 · 10 commits to master since this release

  • Updated templates for local backend
  • Updated templates for slurm backend
  • Refactored tests to produce output in a test specific subdir (as opposed to overwriting the results with each test.)
  • Exit with error when batching is requested as this feature is currently not working pending re-implementation.
Assets 3

@pneerincx pneerincx released this Dec 2, 2016 · 19 commits to master since this release

  • Minor bug fix for SLURM header.ftl template.
  • Updated pom.xml and assembly.xml to create tar.gz instead of zip artifact.
Assets 3

@pneerincx pneerincx released this Aug 21, 2016 · 29 commits to master since this release

  • Updated SLURM job header, job footer and submit templates for cluster setup with Quality of Service (QoS)
  • Removed custom *_gaf templates, which have been relocated to the respective pipeline repos.
Assets 3

@RoanKanninga RoanKanninga released this Jun 28, 2016 · 42 commits to master since this release

added function that will calculate the duration of each job and put it in a file (in the jobs directory)

Assets 3

@RoanKanninga RoanKanninga released this Jun 20, 2016 · 45 commits to master since this release

  • updated header_gaf.ftl
  • added footer_gaf.ftl
  • updated submit_gaf.ftl

Prepared for Error logging (mailing)

Assets 3

@RoanKanninga RoanKanninga released this Apr 7, 2016 · 63 commits to master since this release

  • updated header and submit for slurm (-gaf)
Assets 3

Features

  • Further memory reduction by smart handling of all the parameters stored in the environment

Bugfixes

Fix #236 The environment string is placed into memory before writing it to files. This causes out of memory errors with large sample sizes

Assets 3

Features

  • GoldmanSachs Map and intern Strings for efficient memory usage
  • Massive Speed improvements by refactoring code
  • Enhanced logging, telling more by telling less

Changes

  • The batching feature has been disabled for now, due to implementation issues
  • The generated dist zip now contains a folder with the following name: molgenis-compute-version. This means you no longer have to change the name, only renaming the zip file should work now
Assets 3

@mark-de-haan mark-de-haan released this Dec 9, 2015 · 126 commits to master since this release

Features

Memory usage improvements
Speed improvements

Bugfixes

Fix #192 Missing newline between path and environment variables in generated step scripts
Fix #195 user_ prefix and protocol_prefix make the parameter map entities too big
Fix #197 Tests do not test the content of generated scripts

Changes

Due to efficiency improvements, the 'tasks' variable now only contains the following fields:
- name
- previousSteps

Keep this in mind when creating your own custom submit.ftl

Assets 3
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