pdp10/sbpipe issues and pull requests

#261 - conda recipes

Issue - State: closed - Opened by pdp10 over 6 years ago

#260 - updated CRAN target

Pull Request - State: closed - Opened by pdp10 over 6 years ago

#259 - updated badges references

Pull Request - State: closed - Opened by pdp10 over 6 years ago

#258 - Update README.md

Pull Request - State: closed - Opened by pdp10 over 6 years ago

#257 - Add python-copasi dependency for installation via conda.

Issue - State: closed - Opened by pdp10 over 6 years ago - 1 comment
Labels: enhancement

#256 - Feature239

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: enhancement

#255 - #253 Remove deprecated escapes as detected by Python 3.6.

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: warning

#254 - Feature201

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: enhancement

#253 - Solve these deprecation warnings using Python 3.6.3

Issue - State: closed - Opened by pdp10 over 6 years ago - 1 comment
Labels: warning

#252 - installation via conda

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: bug, enhancement

#251 - Snakemake code optimisation

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: enhancement

#250 - Feature241

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: enhancement

#249 - longer job names for SGE - LSF

Issue - State: closed - Opened by pdp10 over 6 years ago
Labels: bug, enhancement

#248 - improved conda packaging.

Pull Request - State: closed - Opened by pdp10 over 6 years ago
Labels: enhancement

#247 - last development updates

Pull Request - State: closed - Opened by pdp10 almost 7 years ago
Labels: enhancement

#246 - #240 R source code exported to separate R package (sbpiper)

Pull Request - State: closed - Opened by pdp10 almost 7 years ago
Labels: enhancement

#245 - updated ISSUE_TEMPLATE.md

Pull Request - State: closed - Opened by pdp10 almost 7 years ago
Labels: enhancement

#244 - travis issue for #240

Issue - State: closed - Opened by pdp10 almost 7 years ago - 1 comment
Labels: bug

#243 - snakemake - sim()

Issue - State: closed - Opened by pdp10 almost 7 years ago - 2 comments
Labels: bug

#242 - Moving to Snakemake completely?

Issue - State: closed - Opened by pdp10 almost 7 years ago - 1 comment
Labels: question

#241 - Optimise Snakemake code

Issue - State: closed - Opened by pdp10 almost 7 years ago - 4 comments
Labels: enhancement

#240 - R code moved to R package

Issue - State: closed - Opened by pdp10 almost 7 years ago - 3 comments
Labels: enhancement

#239 - Improve data analysis scalability

Issue - State: closed - Opened by pdp10 almost 7 years ago - 5 comments
Labels: enhancement

#238 - added files

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: enhancement

#237 - Create PULL_REQUEST_TEMPLATE.md

Pull Request - State: closed - Opened by pdp10 about 7 years ago

#236 - Create ISSUE_TEMPLATE.md

Pull Request - State: closed - Opened by pdp10 about 7 years ago

#235 - Create CONTRIBUTING.md

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: enhancement

#234 - Create CODE_OF_CONDUCT.md

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: enhancement

#233 - local_cpus parameter on cluster

Issue - State: closed - Opened by pdp10 about 7 years ago - 1 comment
Labels: enhancement

#232 - travis

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: enhancement

#231 - corrected Travis continuous test

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: enhancement

#230 - Improved reliability for plot generation of 1-parameter scan time cou…

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: enhancement

#229 - #227 bugfix227

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: bug

#228 - #227 Bugfix227

Pull Request - State: closed - Opened by pdp10 about 7 years ago
Labels: bug

#227 - Bug fix for SBpipe packaging using conda-build

Issue - State: closed - Opened by pdp10 about 7 years ago
Labels: bug

#226 - parameter estimation using constraints

Issue - State: closed - Opened by pdp10 about 7 years ago
Labels: bug, enhancement

#225 - Utilities

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#224 - small edits

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#223 - Develop

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug

#222 - Bugfix221

Pull Request - State: closed - Opened by pdp10 over 7 years ago

#221 - pdflatex fails when one parameter is initial concentration

Issue - State: closed - Opened by pmendes over 7 years ago - 6 comments
Labels: bug

#220 - optimised parameter estimation analysis.

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#219 - Travis running on py2.7, py3.4, and py3.5

Pull Request - State: closed - Opened by pdp10 over 7 years ago

#218 - Develop

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug, enhancement

#217 - Travis conda

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug, enhancement

#216 - Update README.md

Pull Request - State: closed - Opened by pdp10 over 7 years ago

#215 - improved SBpipe packaging

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#214 - Set SBpipe output to quiet for unittests. ok or fail flags are stiil printed

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#213 - Develop

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#212 - Snakemake

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#211 - conda packaging

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#210 - speed up test suite

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#209 - removed $SBPIPE env var

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#208 - Removed SBPIPE environment variable

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#207 - add sbpipe to conda cloud

Issue - State: closed - Opened by pdp10 over 7 years ago - 1 comment
Labels: enhancement

#206 - Travis installs SBpipe dependencies using miniconda

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#205 - Travis installs SBpipe dependencies using miniconda

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#204 - SBpipe was not working on windows.

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug

#203 - os.remove() is now silent.

Pull Request - State: closed - Opened by pdp10 over 7 years ago

#202 - SBpipe fails to run on Windows

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug

#201 - COPASI file consistency checks.

Issue - State: closed - Opened by pdp10 over 7 years ago - 4 comments
Labels: enhancement

#200 - SBpipe fails to run on Windows

Issue - State: closed - Opened by pdp10 over 7 years ago - 3 comments
Labels: bug

#199 - added logspace control

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug, enhancement

#198 - small bugfixes

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug

#197 - minor edit.

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#196 - small improvements

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#195 - Close popen output files

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#194 - close popen() output files in Python 3.

Issue - State: closed - Opened by pdp10 over 7 years ago - 1 comment
Labels: enhancement

#193 - replaced `chi^2` with `Obj Val` (see #192)

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#192 - Chi2 to objfun (#191)

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#191 - replace `Chi^2` with the more generic `objective value`

Issue - State: closed - Opened by pdp10 over 7 years ago - 1 comment
Labels: enhancement

#190 - added extra warnings

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug, enhancement

#189 - Added extra warning and error messages

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: bug, enhancement

#188 - bugfix - accept ".txt" report files.

Issue - State: closed - Opened by pdp10 over 7 years ago
Labels: bug, enhancement

#187 - cleaning

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#186 - added test cases for interrupted parameter estimations using Copasi

Pull Request - State: closed - Opened by pdp10 over 7 years ago
Labels: enhancement

#185 - fixed small bug if colorlog package is not found.

Pull Request - State: closed - Opened by pdp10 over 7 years ago - 1 comment
Labels: bug

#184 - improved debugging

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#183 - small edits; improved debugging

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#182 - argparse (see #181)

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#181 - replace optarg with argparse

Issue - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#180 - yaml, nosetests, argparse

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#179 - Nosetests

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#178 - Yaml config files

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#177 - Migrate from INI config files to YAML config files

Issue - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#176 - merge from develop

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: bug, enhancement

#175 - Moved test configuration files outside Working_Folder/

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#174 - Python wrapper #173

Pull Request - State: closed - Opened by pdp10 almost 8 years ago

#173 - Python wrappers for running models coded in ANY programming language

Issue - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#172 - Sge bugfix #169

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: bug

#171 - bugfix #169

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: bug

#170 - Sge bugfix - #169

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: bug

#169 - stoch simul fails on sge

Issue - State: closed - Opened by pdp10 almost 8 years ago - 1 comment
Labels: bug

#168 - update version number.

Pull Request - State: closed - Opened by pdp10 almost 8 years ago

#167 - Added missing bracket.

Pull Request - State: closed - Opened by pdp10 almost 8 years ago

#166 - updated installation doc for windows

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#165 - Last refinements

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#164 - pipelines implemented with a pipeline framework

Issue - State: closed - Opened by pdp10 almost 8 years ago - 5 comments
Labels: enhancement

#163 - Python 3 support

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

#162 - Small refinements

Pull Request - State: closed - Opened by pdp10 almost 8 years ago
Labels: enhancement

GitHub / pdp10/sbpipe issues and pull requests