| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2016-04-20 | r-wgcna: Fix paths | pjotrp | |
| 2016-04-20 | More hard-coded | pjotrp | |
| 2016-04-20 | [PATCH 050/100] Using out-of-tree storage. Added comments for plink, | Pjotr Prins | |
| gemma. | |||
| 2016-04-20 | [PATCH 049/100] SNP_PATH: removal | Pjotr Prins | |
| 2016-04-20 | Update INSTALL.md | pjotrp | |
| 2016-04-20 | [PATCH 047/100] This commit moves the image generation dir *outside* the git ↵ | Pjotr Prins | |
| repository. | |||
| 2016-04-20 | external program should fail on return value not zero | pjotrp | |
| 2016-04-20 | [PATCH 045/100] Reverted on previous changes. With a corrected | Pjotr Prins | |
| python2-piddle module the thing works. Turns out that the version we are using is not the same as the public one. Despite the same version number. | |||
| 2016-04-20 | Minor fixes | pjotrp | |
| 2016-04-20 | [PATCH 042/100] Sanitizing locations | Pjotr Prins | |
| 2016-04-20 | [PATCH 041/100] Fixes for running tools | Pjotr Prins | |
| 2016-04-20 | When a sample does not exist we should not set sample_data to None. Better ↵ | pjotrp | |
| to leave it out so it never gets processed again. | |||
| 2016-04-20 | -a | Pjotr Prins | |
| [PATCH 039/100] Removing commented code | |||
| 2016-04-20 | -a | Pjotr Prins | |
| [PATCH 038/100] Fix compile errors | |||
| 2016-04-20 | [PATCH 037/100] WebQtlConfig: sanitizing naming and used vars | Pjotr Prins | |
| 2016-04-20 | Settled on the _COMMAND syntax over _RUN | pjotrp | |
| 2016-04-20 | With missing samples to not add them to the result set | pjotrp | |
| 2016-04-20 | This threw an error when sample is missing in the DB. | pjotrp | |
| Let sample pass without data if the sample/genotype does not exist in the database. | |||
| 2016-04-20 | [PATCH 033/100] Refactored file searching | Pjotr Prins | |
| 2016-04-20 | [PATCH 032/100] file locating: error checking is built-in | Pjotr Prins | |
| 2016-04-20 | Fine tuning file locating | pjotrp | |
| 2016-04-20 | tools.py: add function locate_without_error | pjotrp | |
| 2016-04-20 | Tell redis where to store its persistent db | pjotrp | |
| 2016-04-20 | [PATCH 027/100] Introduce tools.locate | Pjotr Prins | |
| 2016-04-20 | [PATCH 026/100] Introducing cached values PYLMM_COMMAND, | Pjotr Prins | |
| GEMMA_COMMAND, PLINK_COMMAND and TEMPDIR | |||
| 2016-04-20 | Introducing TEMPDIR | pjotrp | |
| 2016-04-20 | [PATCH 024/100] Sanitizing file handling | Pjotr Prins | |
| 2016-04-20 | [PATCH 023/100] WIP fixing all paths | Pjotr Prins | |
| 2016-04-20 | Successful startup of GN2 with MySQL | pjotrp | |
| 2016-04-20 | Remover dependency to logger_tree (may reintroduce later) | pjotrp | |
| 2016-04-20 | [PATCH 018/100] Find external tools: refactored code to work with GNU Guix | Pjotr Prins | |
| 2016-04-20 | README: add URL | pjotrp | |
| 2016-04-20 | * bin/genenetwork2: path handling | pjotrp | |
| 2016-04-20 | Removed import htmlgen as is not used (apparently) | pjotrp | |
| 2016-04-20 | * ./bin/genenetwork2: New file | pjotrp | |
| 2016-04-20 | Docs: Use ./doc dir instead of ./misc | pjotrp | |
| 2016-04-20 | [PATCH 012/100] Adding configuration for running a default server | Pjotr Prins | |
| 2016-04-20 | [PATCH 010/100] README | Pjotr Prins | |
| 2016-04-20 | Docs | Pjotr Prins | |
| 2016-04-18 | Additive effect lines are now separated by chromosome (like the qtl line in ↵ | zsloan | |
| the last commit) Fixed order of stats table in trait page Removed the qtl results table from chromosome view; will add the Interval Analyst output later | |||
| 2016-04-14 | Fixed issue where qtl lines in interval mapping wouldn't connect between ↵ | zsloan | |
| chromosomes Added text explaining what * indicates in the mapping options menu Removed ranges (log2 and fold) from stats table for phenotype traits | |||
| 2016-04-13 | Moved the code getting the description/location because it was throwing an ↵ | zsloan | |
| error for phenotype traits | |||
| 2016-04-13 | Global search should be able to return description and location columns now | zsloan | |
| 2016-04-11 | Changed the way trait data is retrieved for the global search page (it now ↵ | zsloan | |
| gets the LRS location repr and other variables needed to display in table during the retrieve_info function in trait.py instead of retrieve_trait_info in dataset.py) This change increases the speed by a bit (85 seconds to 66 seconds for example) Made the column width for location a bit wider for global search page so it doesn't spill onto a second line | |||
| 2016-04-07 | Added option to change the maximum y-axis value for GN1 mapping figure | zsloan | |
| 2016-04-07 | Permutation figure and x-axis label should change to correctly reflect the ↵ | zsloan | |
| mapping scale (lrs or lod) Fixed bug where broken image link would appear if you ran R/qtl with no permutations | |||
| 2016-04-07 | SNP Track option should now work for GN1 mapping figure | zsloan | |
| Fixed typo in show_trait html that caused the p-value slider to not work for correlations | |||
| 2016-04-06 | The option to switch between LRS and LOD for the GN1 mapping figure should ↵ | zsloan | |
| now work correctly. The correct value (LRS or LOD) will now be displayed in the results table Added glossary links for GN1 mapping figure options (permutations, bootstrap, etc) | |||
| 2016-04-06 | Setting lodm to always be 1.0 fixes the issue where it would incorrectly ↵ | zsloan | |
| display LOD scores for the Y-Axis instead of LRS values | |||
| 2016-04-06 | Permutations (suggestive/significant lines, legend, and histogram) should ↵ | zsloan | |
| now work for both R/qtl and qtl reaper mapping. Changed the logic for receiving permutation/bootstrap info when loading mapping page in different ways (from show_trait, from remapping, from clicking single chromosome) Added text below figure when Allele Effects selected/relevant | |||
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
| aboutsummaryrefslogtreecommitdiff |