Commits · 18e228a6f732904b4762c010da6f757fccbe99d4 · Mirrors / mutalyzer

Oct 10, 2011

Give an error on protein reference sequences · 18e228a6

Vermaat authored 13 years ago

Until protein reference sequences are supported, give an error with a message
instead of crashing. Fixes #62.

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@388 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

18e228a6

Accept IVS locations in Variant_info LOVD interface · 302ba055

Vermaat authored 13 years ago

The fix is a hack, basically copying the same functionality from the
namechecker. I think this should eventually be merged somehow.

Fixes #63


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@387 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

302ba055

Update default Mutalyzer location in cache-sync cronjob · f4a60125

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@386 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

f4a60125

Oct 07, 2011

Copy user config from install as root (fixes #64) · cd447389

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@385 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

cd447389

Do apt-get update before installing in pre-install script · d0682e4b

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@384 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

d0682e4b

Oct 06, 2011

Update development notes · 0b6bf436

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@383 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

0b6bf436

Oct 05, 2011

Update documentation · e7995ea2

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@382 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

e7995ea2

Oct 04, 2011

Fix for migration 001 (set default values) · e12d3c81

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@381 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

e12d3c81

Sep 30, 2011

Small documentation update · daf079e9

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@380 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

daf079e9

Open development for 2.0.beta-12 · 13440c94

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@375 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

13440c94

Release 2.0.beta-11 · 1b7fb8f9

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@373 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

1b7fb8f9

Merge refactor-mutalyzer-branch back into trunk · f48bd705

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@372 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

f48bd705

Fix bug in command line interface · feb61bba

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@371 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

feb61bba

Sep 29, 2011

Rename GenBank Uploader to Reference File Loader · 234ff625

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@370 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

234ff625

Sep 27, 2011

Add HEAD method to /Reference download · f8d9bab7

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@369 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

f8d9bab7

Fix crash in VariantInfo (thanks Ivo) · 6f20208c

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@368 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

6f20208c

Sep 26, 2011

Implement mod_wsgi daemon mode and zero-downtime upgrades · 9d901c20

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@367 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

9d901c20

New location for Trac · a0d5a066

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@366 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

a0d5a066

Sep 20, 2011

Fix uploading non-genbank files · 3fbe50a1

Vermaat authored 13 years ago

- Issue a warning instead of an UD number when a user uploads something
  that is not a genbank file (fixes #59).
- Fix a Heisenbug in the batch job unit tests. Wait a little before
  downloading the batch job results.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@365 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

3fbe50a1

Fix looping over homedirs in post-install script · dc934b6a

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@364 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

dc934b6a

Sep 19, 2011

Fix active menu highlighting on HTTPS · 917ecda7

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@363 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

917ecda7

Fix for getCache webservice unit test · ed8d8c45

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@362 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

ed8d8c45

Use NCBI mapping data from older build · a9029121

Vermaat authored 13 years ago

We previously used the NCBI mapping data for the current build, but now a new
build was just released, the mapping data is missing (they are waiting for the
data and it should be up soon).

For now, we just use the mapping data for the archived previous build (it is
the build we were using until now anyway).

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@361 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

a9029121

Fix bug in migration script · 85430fb0

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@360 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

85430fb0

Sep 14, 2011

Merge r356 from trunk · 357e229a

Vermaat authored 13 years ago

Added a ping() function to the webservice.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@359 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

357e229a

Sep 13, 2011

Use test mail address in batch unit tests · 1caa029b

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@358 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

1caa029b

By default, don't run mapping updates from cron in new installations. · 65b150f8

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@357 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

65b150f8

Sep 11, 2011

Added a ping() function to the webservice. · b24246f5

Laros authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@356 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

b24246f5

Sep 09, 2011

Merge r354 from trunk · e80a8d00

Vermaat authored 13 years ago

Added an optional versions parameter to the getTranscripts function.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@355 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

e80a8d00

Sep 08, 2011
- Added an optional versions parameter to the getTranscripts function. · d6caf734
  Laros authored 13 years ago
  
  git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@354 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1
  d6caf734
Sep 07, 2011

Do not crash on multiple reference definitions (bug #49). · 300fd6fe

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@353 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

300fd6fe

More cleanup in SOAP tools. · 3b169364

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@352 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

3b169364

Some cleanup in SOAP tools. · c1464089

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@351 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

c1464089

Sep 06, 2011

Fix bug in cache directory cleaning if it would have subdirectories. · c70bc59e

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@350 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

c70bc59e

Few fixes: · 2db1eb7e

Vermaat authored 13 years ago

Add user configuration files from post-install script.
Fix bug in post-install script (failed at importing mapping data).
Suppress console warnings from mapping update script.

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@349 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

2db1eb7e

Sep 05, 2011

Better color codes. · 62e7610b

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@348 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

62e7610b

Install/upgrade scripts output colorized messages. · a74b3515

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@347 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

a74b3515

Add SOAP method getdbSNPDescriptions. · 939603f5

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@346 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

939603f5

Fix in soaptools example client code. · ebeeace5

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@345 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

ebeeace5

Various small code and style fixes (some picked up by pychecker). · 0bc33a9b

Vermaat authored 13 years ago

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/branches/refactor-mutalyzer-branch@344 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

0bc33a9b