xcms_xcmsset: README.rst annotate

annotate README.rst @ 6:0888f7ef739a draft

planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6

author	lecorguille
date	Fri, 08 Apr 2016 10:38:52 -0400
parents	588b0a7ae4b0
children	69eb0fc05837

rev	line source
5 588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	1
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	2 Changelog/News
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	3 --------------
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	4
6 0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	5 Version 2.0.8 - 06/04/2016
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	6
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	7 - TEST: refactoring to pass planemo test using conda dependencies
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	8
5 588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	9
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	10 Version 2.0.7 - 10/02/2016
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	11
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	12 - BUGFIX: better management of errors. Datasets remained green although the process failed
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	13
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	14 - BUGFIX/IMPROVEMENT: New checking steps around the imported data in order to raise explicte error message before or after launch XCMS: checking of bad characters in the filenames, checking of the XML integrity and checking of duplicates which can appear in the sample names during the XCMS process because of bad characters
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	15
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	16 - BUGFIX/IMPROVEMENT: New step to check and delete bad characters in the XML: accented characters in the storage path of the mass spectrometer
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	17
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	18 - UPDATE: refactoring of internal management of inputs/outputs
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	19
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	20 - UPDATE: refactoring to feed the new report tool
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	21
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	22
6 0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	23 Version 2.0.2 - 18/01/2016
5 588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	24
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	25 - BUGFIX: Some zip files were tag as "corrupt" by R. We have changed the extraction mode to deal with thoses cases.
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	26
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	27
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	28 Version 2.0.2 - 09/10/2015
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	29
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	30 - BUGFIX: Some users reported a bug in xcms.xcmsSet. The preprocessing stops itself and doesn't import the whole dataset contained in the zip file without warning. But meanwhile, please check your samplemetadata dataset and the number of rows.
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	31
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	32
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	33 Version 2.0.2 - 02/06/2015
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	34
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	35 - NEW: The W4M workflows will now take as input a zip file to ease the transfer and to improve dataset exchange between tools and users. (See How_to_upload). The previous "Library directory name" is still available but we invite user to switch on the new zip system as soon as possible.
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	36
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	37 - IMPROVEMENT: new datatype/dataset formats (rdata.xcms.raw, rdata.xcms.group, rdata.xcms.retcor ...) will facilitate the sequence of tools and so avoid incompatibility errors.
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	38
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	39 - IMPROVEMENT: parameter labels have changed to facilitate their reading.
6 0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	40
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	41
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	42 Test Status
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	43 -----------
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	44
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	45 Planemo test using conda: passed
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	46
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	47 Planemo test using source env.sh: passed
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	48
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	49 Planemo shed_test : passed

Mercurial > repos > lecorguille > xcms_xcmsset

annotate README.rst @ 6:0888f7ef739a draft