Commits · 58737166744ad3b8940c91538410b64b53a49825 · vidjil / vidjil

17 Jul, 2015 1 commit

index.html: remove 'settings > selected locus' submenu · 58737166

Mathieu Giraud authored Jul 17, 2015

This was not really meaningful when displaying several locus on the grid,
and less functional than the 'germline' box in the info panel

58737166

16 Jul, 2015 22 commits
- dev.org: Some (sparse) developer documentation · 0f6fc808
  Mikaël Salson authored Jul 16, 2015
  
  0f6fc808
- launch_functional_tests: Use a script to launch functional tests · 2c9bf5b8
  Mikaël Salson authored Jul 16, 2015
```
Needed to back up reports as ci_reporter remove the reports before launching a new file…
```
  2c9bf5b8
- test_analysis-example1.rb: Test the example provided in the documentation · 8a083dab
  Mikaël Salson authored Jul 16, 2015
  
  8a083dab
- test_multilocus.rb: add test on export fasta · c7196113
  Mikaël Salson authored Jul 16, 2015
  
  c7196113
- vidjil_browser.rb: add access to several components · 22f2929a
  Mikaël Salson authored Jul 16, 2015
  
  22f2929a
- index.html: Add id to each item of import/export menu · 9cb61a95
  Mikaël Salson authored Jul 16, 2015
  
  9cb61a95
- vidjil_browser.rb: IDs can't be integers (we could convert it…) · 66f1d266
  Mikaël Salson authored Jul 16, 2015
  
  66f1d266
- builder.js: The class name includes the locus · 648857e4
  Mikaël Salson authored Jul 16, 2015
```
The corresponding span can be selected more easily depending on their locus.
```
  648857e4
- builder.js: Two info lines had the same ID. · 6e7cba10
  Mikaël Salson authored Jul 16, 2015
```
Bug found thanks to Watir
```
  6e7cba10
- format-analysis.org: Typo in the analysis example · 6b8e66d5
  Mikaël Salson authored Jul 16, 2015
```
The analysis is related to the 2nd .vidjil example, not the first one.
No trailing comma on the last item.
```
  6b8e66d5
- watir: split tests in multiple files · 4afe6fac
  Mikaël Salson authored Jul 16, 2015
```
browser_tests is used to put in place all the necessary environment while
test_multilocus is a particular test on a particular file.
```
  4afe6fac
- clone_test.js : new color value for clone c1 (due to new others clones) · 997dc313
  florian.thonier authored Jul 16, 2015
  
  997dc313
- list_test.js : new values after norm, due to new size of normalised clone (TRG... · 595b8a46
  florian.thonier authored Jul 16, 2015
```
list_test.js : new values after norm, due to new size of normalised clone (TRG smaller, half size than before)
```
  595b8a46
- graph_test.js : new value of graph.data_res[0] due to new length (smallers clones) · 88fafd34
  florian.thonier authored Jul 16, 2015
  
  88fafd34
- axis_test.js : new values of axis.pos[0] with new length of clones (smaller clones) · adb01e46
  florian.thonier authored Jul 16, 2015
  
  adb01e46
- test for stat in segment added · 657afafc
  Tatiana Rocher authored Jul 16, 2015
  
  657afafc
- test: testing a custom 'germlines.data' file · 8d951c8c
  Mathieu Giraud authored Jul 16, 2015
  
  8d951c8c
- vidjil.cpp: update help · d50c2127
  Mathieu Giraud authored Jul 16, 2015
  
  d50c2127
- vidjil.cpp: -g takes either a path, or a full filename to 'germlines.data' · 289965df
  Mathieu Giraud authored Jul 16, 2015
  
  289965df
- core/tools.{cpp,h}: extract_dirname · d84d1e50
  Mathieu Giraud authored Jul 16, 2015
  
  d84d1e50
- normalization: The ID was not attributed to the correct input. · d07b875a
  Mikaël Salson authored Jul 16, 2015
```
There is a button for normalizing external data and a button for normalizing clones.
An ID is attributed to both of them. This fixes the browser functional testing
```
  d07b875a
- model.js: small comment makes big difference · e0aa6de9
  Mikaël Salson authored Jul 16, 2015
  
  e0aa6de9
15 Jul, 2015 1 commit
- scripts/scheduler-stats.py: duration of the scheduled tasks · 4d05531d
  Mathieu Giraud authored Jul 15, 2015 and Vidjil Team committed Jul 15, 2015
  
  4d05531d
13 Jul, 2015 3 commits
- scripts/links.py: option -a, yield one analysis file per patient · 87f88de6
  Mathieu Giraud authored Jul 13, 2015 and Vidjil Team committed Jul 13, 2015
  
  87f88de6
- scripts/links.py: factorize patient_string() · d7074f72
  Mathieu Giraud authored Jul 13, 2015 and Vidjil Team committed Jul 13, 2015
  
  d7074f72
- scripts/links.py: option -w, list raw file names · 995a6b69
  Mathieu Giraud authored Jul 12, 2015 and Vidjil Team committed Jul 13, 2015
  
  995a6b69
10 Jul, 2015 11 commits
- tests: update tests · f5c0b8b8
  Mathieu Giraud authored Jul 10, 2015
  
  f5c0b8b8
- tools/latex.py: do not fail when there is a patient without clones · 652aa0f2
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  652aa0f2
- tools/latex.py: output patient short name · 3cf7c4e8
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  3cf7c4e8
- tools/fuse.py: .latex(), protect a '%' · e83884f5
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  e83884f5
- scripts/links.py: we do not want spaces in linked filenames · 1359cace
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  1359cace
- scripts/links.py: filtering is also on patient names · a2ae65f9
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  a2ae65f9
- scripts/links.py: filtering ('-f') works also with sequence output ('-s') · 9f874f26
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  9f874f26
- scripts/links.py: argparse, flexible output, '-s'/'-r'/'-d' options · f72e2af1
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  f72e2af1
- scripts/links.py: argparse, accepts '-f' option to filter for some tag on db.patient.info · bd4e0bcb
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  bd4e0bcb
- patient/index.html: display also total number of files and total size · 3383b21d
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  3383b21d
- patient/index.html: display total number of patients · 32823f01
  Mathieu Giraud authored Jul 10, 2015 and Vidjil Team committed Jul 10, 2015
  
  32823f01
09 Jul, 2015 2 commits
- js/list.js: virtual clones, display only when the system is selected · ac2f214b
  Mathieu Giraud authored Jul 09, 2015
  
  ac2f214b
- views/results_file/info.html: do not fail when there is no run to display · d064018a
  Mathieu Giraud authored Jul 02, 2015 and Vidjil Team committed Jul 09, 2015
```
We have several "'NoneType' object has no attribute 'status'" tickets on the server.
We should investigate why info.html has sometimes no run to display.
```
  d064018a