xcms_xcmsset: README.rst annotate

annotate README.rst @ 10:69eb0fc05837 draft

planemo upload for repository https://github.com/workflow4metabolomics/xcms commit ec6f0c17bb277ea34f898d96d12d3357220f73d4

author	lecorguille
date	Wed, 06 Jul 2016 17:42:15 -0400
parents	0888f7ef739a
children	91311aa08cdc

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
10 69eb0fc05837 planemo upload for repository https://github.com/workflow4metabolomics/xcms commit ec6f0c17bb277ea34f898d96d12d3357220f73d4 lecorguille parents: 6 diff changeset	5 Version 2.0.9 - 06/07/2016
69eb0fc05837 planemo upload for repository https://github.com/workflow4metabolomics/xcms commit ec6f0c17bb277ea34f898d96d12d3357220f73d4 lecorguille parents: 6 diff changeset	6
69eb0fc05837 planemo upload for repository https://github.com/workflow4metabolomics/xcms commit ec6f0c17bb277ea34f898d96d12d3357220f73d4 lecorguille parents: 6 diff changeset	7 - UPGRADE: upgrate the xcms version from 1.44.0 to 1.46.0
69eb0fc05837 planemo upload for repository https://github.com/workflow4metabolomics/xcms commit ec6f0c17bb277ea34f898d96d12d3357220f73d4 lecorguille parents: 6 diff changeset	8
6 0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	9 Version 2.0.8 - 06/04/2016
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	10
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	11 - 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	12
5 588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	13
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	14 Version 2.0.7 - 10/02/2016
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	15
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	16 - BUGFIX: better management of errors. Datasets remained green although the process failed
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	17
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	18 - 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	19
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	20 - 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	21
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	22 - UPDATE: refactoring of internal management of inputs/outputs
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	23
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	24 - UPDATE: refactoring to feed the new report tool
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	25
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	26
6 0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	27 Version 2.0.2 - 18/01/2016
5 588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	28
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	29 - 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	30
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	31
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	32 Version 2.0.2 - 09/10/2015
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	33
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	34 - 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	35
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	36
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	37 Version 2.0.2 - 02/06/2015
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	38
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	39 - 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	40
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	41 - 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	42
588b0a7ae4b0 planemo upload lecorguille parents: diff changeset	43 - 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	44
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	45
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	46 Test Status
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	47 -----------
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 test using conda: passed
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	50
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	51 Planemo test using source env.sh: passed
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	52
0888f7ef739a planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 83b80dcd96b379518c2e4ace992affc889d32ca6 lecorguille parents: 5 diff changeset	53 Planemo shed_test : passed

Mercurial > repos > lecorguille > xcms_xcmsset

annotate README.rst @ 10:69eb0fc05837 draft