broadinstitute / catch / 384

Builds Branch Commit Type Ran Committer Via Coverage
384 simplify-large-input Parallelize filters over target groupings This is only performed when the input (probes to filter) are grouped by target genome groupings and the filter does not accept target genome groupings. It is helpful for the filters in near_duplicate_filt... push haydenm travis-ci-com pending completion   set done
383 simplify-large-input Merge 91ae23e20 into f363cb394 Pull #46 web-flow travis-ci-com pending completion   set done
382 simplify-large-input Parallelize set cover instances across genome groupings This can provide runtime improvement when genomes are grouped (e.g., as a result of clustering, as specified in the input, or for identification). It parallelizes solving set cover instances... push haydenm travis-ci-com pending completion   set done
380 simplify-large-input Amend near-duplicate filter tests with higher reporting probability push haydenm travis-ci-com pending completion   set done
381 simplify-large-input Merge a6b2e95f4 into f363cb394 Pull #46 web-flow travis-ci-com pending completion   set done
377 simplify-large-input Merge 761fab214 into f363cb394 Pull #46 web-flow travis-ci-com pending completion   set done
376 simplify-large-input Parallelize exploring neighborhood when finding connected components push haydenm travis-ci-com pending completion   set done
375 master Rename 'blacklist' to 'avoid' This includes the external argument --blacklist-genomes, which is now --avoid-genomes, as well as related internal code. push haydenm travis-ci-com pending completion   set done
374 simplify-large-input Merge 9a1f79b9a into ad1671283 Pull #46 web-flow travis-ci-com pending completion   set done
373 simplify-large-input Add heuristic to limit depth when finding connected components If many sequences are very closely related, the depth-first search may, in practice, only need to explore one of them rather than all of them. This heuristic implements that practice.... push haydenm travis-ci-com pending completion   set done
372 v1.4.1 Merge pull request #45 from broadinstitute/hm-better-hash Improve hash function in MinHash family push web-flow travis-ci-com pending completion   set done
371 simplify-large-input Merge d6ef14ee6 into ad1671283 Pull #46 web-flow travis-ci-com pending completion   set done
370 simplify-large-input Make default clustering method be simple search for connected components This commit adds `utils.cluster.find_connected_components()` to identify connected components in a graph in which sequences are adjacent iff their estimated distance is with... push haydenm travis-ci-com pending completion   set done
369 master Merge pull request #45 from broadinstitute/hm-better-hash Improve hash function in MinHash family push web-flow travis-ci-com pending completion   set done
368 hm-better-hash Tolerate short sequences in MinHash family If an input sequence was too short (fewer than the number of k-mers needed in a signature), the MinHash family previously terminated with a message indicating so. This commit changes the behavior to allo... push haydenm travis-ci-com pending completion   set done