Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / soedinglab/bamm_webserver issues and pull requests

#149 - handle improper accesses to /redirect_genome_browser gracefully

Pull Request - State: open - Opened by croth1 over 4 years ago
Labels: bug, done but not online

#147 - Fix crashes

Pull Request - State: closed - Opened by croth1 almost 5 years ago
Labels: bug

#146 - no error when plotting motif distributions with too few hits

Pull Request - State: closed - Opened by croth1 about 5 years ago
Labels: bug, dev_released

#145 - [d84afd11]: need at least 2 points to select a bandwidth automatically

Issue - State: closed - Opened by croth1 about 5 years ago
Labels: bug

#144 - bugfix: bammscan fasta file validation

Pull Request - State: closed - Opened by croth1 about 5 years ago
Labels: bug

#143 - Server maintainance

Pull Request - State: closed - Opened by croth1 over 5 years ago

#142 - [51e10f56] Error in if (strand_ind[i] == "+") {

Issue - State: closed - Opened by croth1 over 5 years ago - 1 comment
Labels: bug, dev_released

#141 - Add privacy policies

Pull Request - State: closed - Opened by croth1 over 5 years ago

#140 - improved docs

Pull Request - State: closed - Opened by croth1 almost 6 years ago

#139 - BaMMScan allow searching sequences against a full database.

Issue - State: open - Opened by croth1 about 6 years ago
Labels: enhancement

#138 - make it clearer that uploaded files have to be raw text files

Issue - State: open - Opened by croth1 about 6 years ago
Labels: enhancement

#137 - add textfield for sequence input

Issue - State: open - Opened by croth1 about 6 years ago
Labels: enhancement

#136 - docs: added ModERN database

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: doc

#135 - small bugfixes in submodules

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: bug, dev_released

#134 - [1b847ab3] unbound variable in pwm2bamm

Issue - State: closed - Opened by croth1 over 6 years ago
Labels: bug, dev_released

#133 - updated django & cleaned up dependencies

Pull Request - State: closed - Opened by croth1 over 6 years ago

#132 - add Drosophila database to our BaMM database

Issue - State: closed - Opened by wge11 over 6 years ago - 4 comments
Labels: enhancement, dev_released

#131 - export BaMMmatch results into a tsv/csv table file

Issue - State: open - Opened by wge11 over 6 years ago
Labels: enhancement

#130 - [62f6484c] bug in plotMotifDistribution.R

Issue - State: closed - Opened by wge11 over 6 years ago - 1 comment
Labels: bug, dev_released

#129 - [13809025] error in shoot-peng motif evaluation

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, dev_released

#128 - [a5029173] bug in plotMotifDistribution.R

Issue - State: closed - Opened by wge11 over 6 years ago - 1 comment
Labels: bug, dev_released

#127 - fixed memory problem in fdr calculation

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: bug

#126 - docker: update alpine to 3.8

Pull Request - State: closed - Opened by croth1 over 6 years ago

#125 - [f921038f] problem evaluating seeds

Issue - State: closed - Opened by croth1 over 6 years ago - 5 comments
Labels: bug

#124 - added DOIs to all references

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: doc

#123 - test: verify that invalid uuids now produce a 404 error

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: test

#122 - bug: non-uuid inputs as job ids now consistently generate 404 errors

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: bug

#121 - Various small bug fixes for 1.2.2

Pull Request - State: closed - Opened by croth1 over 6 years ago

#120 - Result page does not show images when FDR is not run

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug

#119 - 'utf-8' codec can't decode byte 0xd2 in position 16: invalid continuation byte

Issue - State: closed - Opened by croth1 over 6 years ago
Labels: bug

#118 - fix calculation of probabilities in the left flanking region of the model

Issue - State: closed - Opened by wge11 over 6 years ago - 1 comment
Labels: enhancement

#117 - bug: manual refine now runs bammscan for all motifs

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: bug

#116 - Improvement round

Pull Request - State: closed - Opened by croth1 over 6 years ago

#115 - Fix BaMMscan crash due to changes in --basename argument interpretation

Pull Request - State: closed - Opened by croth1 over 6 years ago

#114 - [edd271f9]: non-existing file error

Issue - State: closed - Opened by croth1 over 6 years ago - 2 comments
Labels: bug

#113 - Server does not stop updating when job crashes

Issue - State: closed - Opened by wge11 over 6 years ago - 2 comments

#112 - [19530c7c] Error in plotBaMMLogo.R code

Issue - State: closed - Opened by wge11 over 6 years ago - 2 comments
Labels: bug

#111 - [9dd888d1] error in plotPvalStats.R

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, priority

#110 - bug: error status not captured properly

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: bug

#109 - updated bamm dependency

Pull Request - State: closed - Opened by croth1 over 6 years ago

#108 - updated peng submodule

Pull Request - State: closed - Opened by croth1 over 6 years ago

#107 - bug: fix broken links on my_results page

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: bug

#106 - updated suite after fixing an MMcompare problem.

Pull Request - State: closed - Opened by croth1 over 6 years ago

#105 - [42c5d4b7] crash in MMcompare script

Issue - State: closed - Opened by croth1 over 6 years ago - 2 comments

#104 - improvements to backup logging

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: enhancement

#103 - adds configuration option to set tmp dir

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: enhancement

#102 - improves page to recently submitted jobs

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: enhancement

#101 - bamm result page now ranks motifs properly

Pull Request - State: closed - Opened by croth1 over 6 years ago

#100 - Add supervisor

Pull Request - State: closed - Opened by croth1 over 6 years ago

#99 - Fix 8c0cc6e9

Pull Request - State: closed - Opened by croth1 over 6 years ago

#98 - [8c0cc6e9] segfault in FDR

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, priority

#97 - Bugfix for 1a38acd0

Pull Request - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, priority

#96 - [1a38acd0] segfault in BaMM fdr

Issue - State: closed - Opened by croth1 over 6 years ago - 4 comments
Labels: bug, priority

#95 - update docs for new version

Pull Request - State: closed - Opened by croth1 over 6 years ago

#94 - check all javascript for selecting motifs in manual denovo workflow broken

Issue - State: closed - Opened by croth1 over 6 years ago
Labels: bug, dev_released

#93 - [fa31e1f2] extra newlines in meme generated for refinement

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, dev_released

#92 - small bug fixes/improvements

Pull Request - State: closed - Opened by croth1 over 6 years ago

#91 - [c05f7883] error raised in plotPvalStats.R

Issue - State: closed - Opened by croth1 over 6 years ago - 2 comments
Labels: bug, dev_released

#90 - [ffc51207] Problem with very short sequences

Issue - State: closed - Opened by croth1 over 6 years ago - 3 comments
Labels: bug, priority, dev_released

#89 - Inconsistent databases

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, priority, dev_released

#88 - improve database text search

Issue - State: open - Opened by croth1 over 6 years ago
Labels: enhancement

#87 - max. size of input file

Issue - State: closed - Opened by wge11 over 6 years ago

#86 - Legacy cleanup & speed improvements

Pull Request - State: closed - Opened by croth1 over 6 years ago - 1 comment

#85 - allow warm shutdown of celery workers

Pull Request - State: closed - Opened by croth1 over 6 years ago

#84 - minor bug fixes

Pull Request - State: closed - Opened by croth1 over 6 years ago

#83 - Improvements for the 2nd revision

Pull Request - State: closed - Opened by croth1 over 6 years ago

#82 - make it possible to update databases without losing the job results

Pull Request - State: closed - Opened by croth1 over 6 years ago
Labels: enhancement, priority

#81 - add full job_id to result pages

Issue - State: closed - Opened by croth1 over 6 years ago
Labels: enhancement

#80 - Restructure docs

Pull Request - State: closed - Opened by croth1 over 6 years ago

#79 - Small UI improvements

Pull Request - State: closed - Opened by croth1 over 6 years ago

#78 - update documentation

Pull Request - State: closed - Opened by croth1 over 6 years ago

#77 - updated bamm submodule

Pull Request - State: closed - Opened by croth1 over 6 years ago

#76 - updated instructions for running the server locally

Pull Request - State: closed - Opened by croth1 over 6 years ago

#75 - updated submodules after making the server public

Pull Request - State: closed - Opened by croth1 over 6 years ago

#74 - testing the server workflows for revision 1

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment

#73 - fixed problems uploading BaMM models in scan and compare

Pull Request - State: closed - Opened by croth1 over 6 years ago

#72 - fixed minor bugs switching to new database format

Pull Request - State: closed - Opened by croth1 over 6 years ago

#71 - Modernize database

Pull Request - State: closed - Opened by croth1 over 6 years ago

#71 - Modernize database

Pull Request - State: closed - Opened by croth1 over 6 years ago

#70 - add avRec plots and ui improvements

Pull Request - State: closed - Opened by croth1 over 6 years ago

#69 - Roadmap to first revision

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment

#68 - reworking the motif database result page

Issue - State: closed - Opened by croth1 over 6 years ago

#67 - Cleanup

Pull Request - State: closed - Opened by mwess over 6 years ago - 1 comment

#67 - Cleanup

Pull Request - State: closed - Opened by mwess over 6 years ago - 1 comment

#66 - fast FDR seeding

Issue - State: closed - Opened by croth1 over 6 years ago - 2 comments

#65 - Estimating the q from the data

Issue - State: closed - Opened by croth1 over 6 years ago - 3 comments
Labels: priority

#64 - [WIP] one step denovo workflow

Pull Request - State: closed - Opened by croth1 over 6 years ago - 1 comment

#63 - Session timeout

Pull Request - State: closed - Opened by croth1 over 6 years ago - 1 comment

#62 - Making public

Pull Request - State: closed - Opened by croth1 over 6 years ago

#61 - making the webserver public

Issue - State: closed - Opened by croth1 over 6 years ago
Labels: priority

#60 - switch to new logo

Pull Request - State: closed - Opened by croth1 over 6 years ago

#59 - add new documentation

Pull Request - State: closed - Opened by croth1 over 6 years ago

#58 - feature: show jobs created in the same session

Pull Request - State: closed - Opened by croth1 over 6 years ago

#57 - Fixes validation error when ticking single strand input

Pull Request - State: closed - Opened by croth1 over 6 years ago

#56 - update performance plots on webserver

Issue - State: closed - Opened by croth1 over 6 years ago - 2 comments

#55 - Small post-submission bug-fixes

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment
Labels: bug, enhancement

#54 - Smaller example data

Issue - State: closed - Opened by croth1 over 6 years ago - 1 comment

#53 - Post submission

Pull Request - State: closed - Opened by croth1 almost 7 years ago