{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":15810775,"defaultBranch":"master","name":"hotspot3d","ownerLogin":"ding-lab","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2014-01-10T21:53:25.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/3360897?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1679609753.0","currentOid":""},"activityList":{"items":[{"before":"cde270496486a0843c2ce4303a3d30f5f9b3e49f","after":"1ee17aec809d60b0a4d33774d5cc1b2ca102697e","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-31T20:04:13.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Adjusting for AlphaFoldDB\n\nRenames a few variables;\r\nFixed regex to take unversioned transcript id","shortMessageHtmlLink":"Adjusting for AlphaFoldDB"}},{"before":"e97ff280aa803ce215bd96c29635e16e44548093","after":"cde270496486a0843c2ce4303a3d30f5f9b3e49f","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-31T19:32:34.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Fixed regex to take unversioned ENST id","shortMessageHtmlLink":"Fixed regex to take unversioned ENST id"}},{"before":"9c4e0aa422b70fec1b9c872793430beea5034fee","after":"e97ff280aa803ce215bd96c29635e16e44548093","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-28T04:51:08.163Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Fixed regex to take unversioned ENST id","shortMessageHtmlLink":"Fixed regex to take unversioned ENST id"}},{"before":"bbe4107d16a85fedea4407ad044120c78c0583c0","after":"9c4e0aa422b70fec1b9c872793430beea5034fee","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-26T19:05:03.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Fixed bug with parsing Ensembl ENST ids\n\nFixed regex in function for matching \"DR Ensembl;\" lines in uniprot file's new format.\r\nUniprot is now listing ENST and ENSP ids with version number (e.g. ENST00000262608.13).","shortMessageHtmlLink":"Fixed bug with parsing Ensembl ENST ids"}},{"before":"673f3b635c05be4184d6cc95d81c0ed57747a6ed","after":"bbe4107d16a85fedea4407ad044120c78c0583c0","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-26T16:50:39.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables for alphafold","shortMessageHtmlLink":"Renamed a few variables for alphafold"}},{"before":"fa294a84761ec6fbc253853e7a7910ad8e48f2ce","after":"673f3b635c05be4184d6cc95d81c0ed57747a6ed","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-26T16:43:56.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables for alphafold","shortMessageHtmlLink":"Renamed a few variables for alphafold"}},{"before":"b6fab67cd3146ff52747aeb18addf685ba6660ba","after":"fa294a84761ec6fbc253853e7a7910ad8e48f2ce","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-25T16:40:01.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables for alphafold\n\nAlso updated ensembl latest release","shortMessageHtmlLink":"Renamed a few variables for alphafold"}},{"before":"4ebc97f31475b4f5fc14ebfcc945082433f9cd9a","after":"b6fab67cd3146ff52747aeb18addf685ba6660ba","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-24T03:29:00.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables for alphafolddb","shortMessageHtmlLink":"Renamed a few variables for alphafolddb"}},{"before":"66c4b09c6189919d6d5ded4dc5423652c5224d53","after":"4ebc97f31475b4f5fc14ebfcc945082433f9cd9a","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T23:15:27.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables for alphafolddb","shortMessageHtmlLink":"Renamed a few variables for alphafolddb"}},{"before":"ea9f27e355b902cd2f54982bac90cebaf6aa5cf0","after":"66c4b09c6189919d6d5ded4dc5423652c5224d53","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T23:13:39.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables to for alphafolddb","shortMessageHtmlLink":"Renamed a few variables to for alphafolddb"}},{"before":"38b5eb65e2c49558a1d3a417afcbb708db560cac","after":"ea9f27e355b902cd2f54982bac90cebaf6aa5cf0","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T23:12:49.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Renamed a few variables to for alphafolddb","shortMessageHtmlLink":"Renamed a few variables to for alphafolddb"}},{"before":"09886653ca70de5e8a9c5385095586fb12f27601","after":"38b5eb65e2c49558a1d3a417afcbb708db560cac","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T22:45:14.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Update Calroi.pm","shortMessageHtmlLink":"Update Calroi.pm"}},{"before":"ecf87b694243274a7ea931d4737c04ae569823ca","after":"09886653ca70de5e8a9c5385095586fb12f27601","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T22:40:39.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Updated $hugoUniprotFile filename to alphafolddb version","shortMessageHtmlLink":"Updated $hugoUniprotFile filename to alphafolddb version"}},{"before":"3e3a600f9681e5942d1855029cb6c7b35067ba16","after":"ecf87b694243274a7ea931d4737c04ae569823ca","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T22:30:07.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Fixed bsub command to run on compute1","shortMessageHtmlLink":"Fixed bsub command to run on compute1"}},{"before":"ef7681af8dd678b2177fd6712b74b6e3a1b768bb","after":"3e3a600f9681e5942d1855029cb6c7b35067ba16","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T22:15:53.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Adding AlphaFoldDBStructure.pm script to replace PdbStructure.pm","shortMessageHtmlLink":"Adding AlphaFoldDBStructure.pm script to replace PdbStructure.pm"}},{"before":"b8260bdc66b511cf836690db032fdf4a60e0d0d7","after":"ef7681af8dd678b2177fd6712b74b6e3a1b768bb","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-23T22:14:09.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Update Calpro.pm to handle AlphaFold DB v4","shortMessageHtmlLink":"Update Calpro.pm to handle AlphaFold DB v4"}},{"before":"8c2b7b6ee978f0db68875b07e6e1a3b39c0c1436","after":"b8260bdc66b511cf836690db032fdf4a60e0d0d7","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-16T20:00:32.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Updated Uniprot.pm to handle AlphaFold DB v4.\n\nSwitching from PDB to AlphaFold DB","shortMessageHtmlLink":"Updated Uniprot.pm to handle AlphaFold DB v4."}},{"before":"89c22bbfeea71fcb8c11ba03d44b0693f17c2644","after":"8c2b7b6ee978f0db68875b07e6e1a3b39c0c1436","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-16T19:55:48.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Updated Uppro.pm to handle parsing of AlphaFold DB v4 data.","shortMessageHtmlLink":"Updated Uppro.pm to handle parsing of AlphaFold DB v4 data."}},{"before":"9fe6442342f40ae8c69e568126816a9266536fca","after":"89c22bbfeea71fcb8c11ba03d44b0693f17c2644","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-15T22:47:28.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Update README.md","shortMessageHtmlLink":"Update README.md"}},{"before":"7046aa90e80e20b725d59024a3005f9c6b390efc","after":"9fe6442342f40ae8c69e568126816a9266536fca","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-15T22:46:03.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Update README.md","shortMessageHtmlLink":"Update README.md"}},{"before":null,"after":"7046aa90e80e20b725d59024a3005f9c6b390efc","ref":"refs/heads/alphaFold_implementation","pushedAt":"2023-03-10T02:28:20.488Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Updated functions due to changes in Uniprot file formatting","shortMessageHtmlLink":"Updated functions due to changes in Uniprot file formatting"}},{"before":"4e1f9ae3db8e80f0eaccedf5323e18c51e665bc8","after":"7046aa90e80e20b725d59024a3005f9c6b390efc","ref":"refs/heads/ding_lab_internal","pushedAt":"2023-03-09T22:55:54.313Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Updated functions due to changes in Uniprot file formatting","shortMessageHtmlLink":"Updated functions due to changes in Uniprot file formatting"}},{"before":"e00cde8489505f81a2bbf59d7c9068ad821f7e70","after":"4e1f9ae3db8e80f0eaccedf5323e18c51e665bc8","ref":"refs/heads/ding_lab_internal","pushedAt":"2023-03-09T21:59:09.403Z","pushType":"push","commitsCount":1,"pusher":{"login":"fernanda-rodrigues","name":"Fernanda Martins Rodrigues","path":"/fernanda-rodrigues","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/39970355?s=80&v=4"},"commit":{"message":"Updated Hugo url, which was outdated\n\n- Line `my $HugoUrl = \"https://www.genenames.org/cgi-bin/hgnc_downloads?\".` was replaced with `my $HugoUrl = \"https://www.genenames.org/cgi-bin/download/custom?\".`\r\n- Also deleted the following lines, which correspond to columns that can no longer be retrieved in the current url:\r\n - \"col=gd_record_type&\".\r\n - \"col=gd_primary_ids&\".\r\n - \"col=gd_secondary_ids&\".\r\n - \"col=md_gdb_id&\".\r\n - \"col=md_eg_id&\".\r\nAlso updated field numbers in the lines that follow to retrieve the correct columns.\r\nAlso have to install LWP::Protocol::https and HTTP::Tiny with cpanm so that the url data can be retrieved.","shortMessageHtmlLink":"Updated Hugo url, which was outdated"}}],"hasNextPage":false,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAADD8QZYAA","startCursor":null,"endCursor":null}},"title":"Activity ยท ding-lab/hotspot3d"}