broadinstitute / catch / 288

Builds Branch Commit Type Ran Committer Via Coverage
288 master Change remote URL in README to use HTTPS instead of SSH It appears that using the SSH URL to clone the repository does not work for users without a GitHub account and/or without SSH keys setup: it results in a permission denied warning. Using HTT... push haydenm travis-ci-com pending completion   set done
287 master Replace preprint citation with Nature Biotechnology publication push haydenm travis-ci-com pending completion   set done
285 master Replace preprint citation with Nature Biotechnology publication push haydenm travis-ci-com pending completion   set done
284 master Warn if using default loss coefficients with --use-nd When --loss-coeffs is not provided with --use-nd to pool.py, the search uses a default coefficient of 1 on each parameter in the loss function. This default is usually not appropriate, so this... push haydenm travis-ci-com pending completion   set done
283 v1.2.0 Close probe finding pool even if no work is submitted Previously, probe.close_probe_finding_pool() only closed the multiprocessing.Pool if work was submitted to the pool (see previous comment for why -- this was to avoid a bug in Python 2.7). Th... push haydenm travis-ci-com pending completion   set done
282 master Close probe finding pool even if no work is submitted Previously, probe.close_probe_finding_pool() only closed the multiprocessing.Pool if work was submitted to the pool (see previous comment for why -- this was to avoid a bug in Python 2.7). Th... push haydenm travis-ci-com pending completion   set done
281 reduce-open-file-descriptors Close probe finding pool even if no work is submitted Previously, probe.close_probe_finding_pool() only closed the multiprocessing.Pool if work was submitted to the pool (see previous comment for why -- this was to avoid a bug in Python 2.7). Th... push haydenm travis-ci-com pending completion   set done
280 master Fix bug when a sequence is shorter than k-mer length A bug was introduced by allowing design when sequences are shorter than the probe length (c09c4f6). If a sequence is shorter than the k-mer length (k) used for finding probe coverage in the seq... push haydenm travis-ci-com pending completion   set done
279 master Merge pull request #23 from broadinstitute/skip-small-seqs Allow skipping input sequences that are too short push web-flow travis-ci-com pending completion   set done
278 skip-small-seqs Add --small-seq-skip argument to design.py Sometimes a sequence in an input dataset is too short; in particular, if it is shorter than the probe length, candidate_probes is unable to design candidate probes from it and raises an error. One way to... Pull #23 web-flow travis-ci-com pending completion   set done
277 skip-small-seqs Add --small-seq-skip argument to design.py Sometimes a sequence in an input dataset is too short; in particular, if it is shorter than the probe length, candidate_probes is unable to design candidate probes from it and raises an error. One way to... push haydenm travis-ci-com pending completion   set done
276 master Merge pull request #22 from broadinstitute/filter-polya Add option to filter probes with poly(A) sequence push web-flow travis-ci-com pending completion   set done
275 filter-polya Add --filter-polya argument to design.py When this argument is set, design.py uses polya_filter to filter out candidate probes that contain long stretches of A bases (or T bases). The definition of such a stretch is specified as arguments with --... Pull #22 web-flow travis-ci-com pending completion   set done
274 filter-polya Add --filter-polya argument to design.py When this argument is set, design.py uses polya_filter to filter out candidate probes that contain long stretches of A bases (or T bases). The definition of such a stretch is specified as arguments with --... push haydenm travis-ci-com pending completion   set done
273 master Merge pull request #21 from broadinstitute/speed-sc-setup Speed up construction of universe from IntervalSets push web-flow travis-ci-com pending completion   set done