Often in workflows, we need to generate a list of parameters commandline to drive workflows. For example if we have a list of target proteins for which we want to create predictive models for, for drug molecules, out of a large combined dataset. Optimally this should be doable with any shell command, so that it can be generated based on some existing data. We recently realized that there is not really an easy way to do this in SciPipe currently. Until now. Now there is the new CommandToParams component. We will update with docs shortly, but in the meanwhile, the test contains a small (quite dumb) mini example of how to use it. Note: We have plans to create a more integrated solution for reading data into parameter streams, so that this can ...
This release contains a number of somewhat important bugfixes, for stability and robustness of workf...
Background: The complex nature of biological data has driven the development of specialized software...
What's Changed fix: converted all viewpoint names to strings by @alsmith151 in https://github.com/s...
SciPipe is a library for writing scientific workflows (sometimes also called "pipelines") of shell c...
This release brings an important bugfix, for an error that prevented receiving a stream of parameter...
This release brings some breaking changes in the API, as we try to fix some parts of it that did not...
This release adds a new component: FileCombinator. See the how to for creating file combinations for...
This is a rather small release, which fixes issue #134 and improves logging, by making sure that mor...
This is a smaller release, following up to the 0.6 release where we removed all external dependencie...
This a small fix release that mainly improves error messages when trying to access an in-port that d...
This release contains an important bugfix, making sure that we properly handle all errors (#146). It...
This release contains a pretty deep refactoring to allow an important new feature: running parts of ...
Version 0.4.0: upgrade bootstrap5, drop python 3.6 and 3.7 support and improved pipeline support Up...
Background: The complex nature of biological data has driven the development of specialized software...
What's Changed BREAKING CHANGES: Cgat-core workflow management software replaced by snakemake. Capc...
This release contains a number of somewhat important bugfixes, for stability and robustness of workf...
Background: The complex nature of biological data has driven the development of specialized software...
What's Changed fix: converted all viewpoint names to strings by @alsmith151 in https://github.com/s...
SciPipe is a library for writing scientific workflows (sometimes also called "pipelines") of shell c...
This release brings an important bugfix, for an error that prevented receiving a stream of parameter...
This release brings some breaking changes in the API, as we try to fix some parts of it that did not...
This release adds a new component: FileCombinator. See the how to for creating file combinations for...
This is a rather small release, which fixes issue #134 and improves logging, by making sure that mor...
This is a smaller release, following up to the 0.6 release where we removed all external dependencie...
This a small fix release that mainly improves error messages when trying to access an in-port that d...
This release contains an important bugfix, making sure that we properly handle all errors (#146). It...
This release contains a pretty deep refactoring to allow an important new feature: running parts of ...
Version 0.4.0: upgrade bootstrap5, drop python 3.6 and 3.7 support and improved pipeline support Up...
Background: The complex nature of biological data has driven the development of specialized software...
What's Changed BREAKING CHANGES: Cgat-core workflow management software replaced by snakemake. Capc...
This release contains a number of somewhat important bugfixes, for stability and robustness of workf...
Background: The complex nature of biological data has driven the development of specialized software...
What's Changed fix: converted all viewpoint names to strings by @alsmith151 in https://github.com/s...