{"payload":{"feedbackUrl":"https://github.com/orgs/community/discussions/53140","repo":{"id":18970036,"defaultBranch":"master","name":"smithlab_cpp","ownerLogin":"smithlabcode","currentUserCanPush":false,"isFork":false,"isEmpty":false,"createdAt":"2014-04-20T17:46:44.000Z","ownerAvatar":"https://avatars.githubusercontent.com/u/7265986?v=4","public":true,"private":false,"isOrgOwned":true},"refInfo":{"name":"","listCacheKey":"v0:1697680667.0","currentOid":""},"activityList":{"items":[{"before":"005f38805e4f2621a3222a274052983fd6a04a84","after":"7c1b1ab9c546ca062da8804d3c8c0a1bc1cf4b7a","ref":"refs/heads/master","pushedAt":"2023-11-25T02:32:53.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"GenomicRegion.cpp: checking that file opens properly for bed format files","shortMessageHtmlLink":"GenomicRegion.cpp: checking that file opens properly for bed format f…"}},{"before":"2b2f64ca09a48b93b022273dd56fb36fec1ba9c7","after":"005f38805e4f2621a3222a274052983fd6a04a84","ref":"refs/heads/master","pushedAt":"2023-10-27T19:14:49.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"ProgressBar: the percent-percent as replacement for backslash percent was clearly not right. Now just one percent, and in a c++ string it won't have the problems the percent sign had when used in a possible template string in C","shortMessageHtmlLink":"ProgressBar: the percent-percent as replacement for backslash percent…"}},{"before":"69e38ed3f42a034e63385f359aa92ae08d3f295a","after":null,"ref":"refs/heads/silence-warnings-on-osx-clang","pushedAt":"2023-10-19T01:57:47.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"}},{"before":"f80f5f6cf38ae1af9acb4ba77330cd9d25d1de81","after":"2b2f64ca09a48b93b022273dd56fb36fec1ba9c7","ref":"refs/heads/master","pushedAt":"2023-10-19T01:57:43.000Z","pushType":"pr_merge","commitsCount":4,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge pull request #44 from smithlabcode/silence-warnings-on-osx-clang\n\nSilence warnings on OSX clang","shortMessageHtmlLink":"Merge pull request <a class=\"issue-link js-issue-link\" data-error-text=\"Failed to load title\" data-id=\"1951036031\" data-permission-text=\"Title is private\" data-url=\"https://github.com/smithlabcode/smithlab_cpp/issues/44\" data-hovercard-type=\"pull_request\" data-hovercard-url=\"/smithlabcode/smithlab_cpp/pull/44/hovercard\" href=\"https://github.com/smithlabcode/smithlab_cpp/pull/44\">#44</a> from smithlabcode/silence-warnings-on-osx-clang"}},{"before":null,"after":"69e38ed3f42a034e63385f359aa92ae08d3f295a","ref":"refs/heads/silence-warnings-on-osx-clang","pushedAt":"2023-10-19T01:49:18.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"smithlab_utils.hpp: fixing a non-standard escape sequence for percent symbol","shortMessageHtmlLink":"smithlab_utils.hpp: fixing a non-standard escape sequence for percent…"}},{"before":"acfde8d379e0b2615807df865e1d529401db2f75","after":"f80f5f6cf38ae1af9acb4ba77330cd9d25d1de81","ref":"refs/heads/master","pushedAt":"2023-10-05T01:12:32.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp","shortMessageHtmlLink":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp"}},{"before":"f4761332cc83c5b0f91295c4e38c622c6a9f9e84","after":"acfde8d379e0b2615807df865e1d529401db2f75","ref":"refs/heads/master","pushedAt":"2023-09-21T18:42:50.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"chromosome_utils.cpp: consolidating the implementation of extract_regions_chrom_fasta for GenomicRegion and SimpleGenomicRegion. Removing variable length array by replacing with a string and reading raw data into the dot data member of that string. This function is not tested and is currently not used in abismal or dnmtools but might still be used in rmap","shortMessageHtmlLink":"chromosome_utils.cpp: consolidating the implementation of extract_reg…"}},{"before":"5645567ba5046d1c5d3d1fa7c9fd4822b73dbdd6","after":"f4761332cc83c5b0f91295c4e38c622c6a9f9e84","ref":"refs/heads/master","pushedAt":"2023-09-21T18:39:16.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"smithlab_os.cpp: Using preprocessor directives to ensure that a variable only used in an assert only exists when the assert does","shortMessageHtmlLink":"smithlab_os.cpp: Using preprocessor directives to ensure that a varia…"}},{"before":"5b76fd535b699faa6358e483d7648656e7436bfb","after":"5645567ba5046d1c5d3d1fa7c9fd4822b73dbdd6","ref":"refs/heads/master","pushedAt":"2023-09-18T22:43:54.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp","shortMessageHtmlLink":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp"}},{"before":"9a43bb96bf8ced4a9eb38db4ce27c915f0b1441c","after":"5b76fd535b699faa6358e483d7648656e7436bfb","ref":"refs/heads/master","pushedAt":"2023-09-13T23:31:20.000Z","pushType":"push","commitsCount":6,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Updating the docs to mention c++17","shortMessageHtmlLink":"Updating the docs to mention c++17"}},{"before":"e5f16a38ba8f64113554c7cbe17aab100959b7da","after":"9a43bb96bf8ced4a9eb38db4ce27c915f0b1441c","ref":"refs/heads/master","pushedAt":"2023-09-12T02:21:31.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Changing ProgressBar so the check for whether or not to output has one fewer arithmetic operation","shortMessageHtmlLink":"Changing ProgressBar so the check for whether or not to output has on…"}},{"before":"cbd35d31c94a110fe77da378fa01a15c00b03417","after":null,"ref":"refs/heads/warning","pushedAt":"2023-09-02T00:20:53.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"}},{"before":"1ec1ddad8abf03204ba8bb45432382d92c397b15","after":"e5f16a38ba8f64113554c7cbe17aab100959b7da","ref":"refs/heads/master","pushedAt":"2023-09-01T16:53:21.000Z","pushType":"push","commitsCount":4,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp","shortMessageHtmlLink":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp"}},{"before":"4d58bd2287b186104fa6da7e93326ee89299a30e","after":"1ec1ddad8abf03204ba8bb45432382d92c397b15","ref":"refs/heads/master","pushedAt":"2023-08-27T21:59:43.000Z","pushType":"push","commitsCount":2,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp","shortMessageHtmlLink":"Merge branch 'master' of github.com:smithlabcode/smithlab_cpp"}},{"before":"1d4914b1e1e47cec20ec2338f07eb12236916e21","after":"4d58bd2287b186104fa6da7e93326ee89299a30e","ref":"refs/heads/master","pushedAt":"2023-08-26T17:45:57.000Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge pull request #42 from smithlabcode/warning\n\nremoved lines is_score_line","shortMessageHtmlLink":"Merge pull request <a class=\"issue-link js-issue-link\" data-error-text=\"Failed to load title\" data-id=\"1867826602\" data-permission-text=\"Title is private\" data-url=\"https://github.com/smithlabcode/smithlab_cpp/issues/42\" data-hovercard-type=\"pull_request\" data-hovercard-url=\"/smithlabcode/smithlab_cpp/pull/42/hovercard\" href=\"https://github.com/smithlabcode/smithlab_cpp/pull/42\">#42</a> from smithlabcode/warning"}},{"before":null,"after":"cbd35d31c94a110fe77da378fa01a15c00b03417","ref":"refs/heads/warning","pushedAt":"2023-08-26T00:43:38.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"masarunakajima","name":"Masaru Nakajima","path":"/masarunakajima","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/42074889?s=80&v=4"},"commit":{"message":"removed lines is_score_line","shortMessageHtmlLink":"removed lines is_score_line"}},{"before":"f5454e7f085c2d0543bf0557ec7ce0288e01a87d","after":null,"ref":"refs/heads/warning","pushedAt":"2023-08-26T00:40:22.000Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"masarunakajima","name":"Masaru Nakajima","path":"/masarunakajima","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/42074889?s=80&v=4"}},{"before":null,"after":"f5454e7f085c2d0543bf0557ec7ce0288e01a87d","ref":"refs/heads/warning","pushedAt":"2023-08-26T00:38:53.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"masarunakajima","name":"Masaru Nakajima","path":"/masarunakajima","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/42074889?s=80&v=4"},"commit":{"message":"removed lines containing is_score_line","shortMessageHtmlLink":"removed lines containing is_score_line"}},{"before":"736498cfcc4b2505d15144313d6a2149c90938ed","after":"1d4914b1e1e47cec20ec2338f07eb12236916e21","ref":"refs/heads/master","pushedAt":"2023-08-09T01:32:36.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Moving the function has_gz_ext from zlib_wrapper.hpp to smithlab_os.hpp","shortMessageHtmlLink":"Moving the function has_gz_ext from zlib_wrapper.hpp to smithlab_os.hpp"}},{"before":"a40107afbaae6820e48d7f847722dbee28adcbdf","after":"736498cfcc4b2505d15144313d6a2149c90938ed","ref":"refs/heads/master","pushedAt":"2023-08-05T21:14:56.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Update to progress bar time_to_report function","shortMessageHtmlLink":"Update to progress bar time_to_report function"}},{"before":"78abf3a362b5b67c5024b2e0d84af025afea921b","after":"a40107afbaae6820e48d7f847722dbee28adcbdf","ref":"refs/heads/master","pushedAt":"2023-08-05T20:21:17.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Removing commented code that was committed accidentally","shortMessageHtmlLink":"Removing commented code that was committed accidentally"}},{"before":"c198ca739da5e60872509c5a190f92240d392158","after":"78abf3a362b5b67c5024b2e0d84af025afea921b","ref":"refs/heads/master","pushedAt":"2023-08-05T01:52:43.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Forcing progress bar to never show more than 100% progress","shortMessageHtmlLink":"Forcing progress bar to never show more than 100% progress"}},{"before":"5d59aad268bbac6b1076570493c068ec924dfd01","after":"c198ca739da5e60872509c5a190f92240d392158","ref":"refs/heads/master","pushedAt":"2023-07-21T04:28:10.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Adding code in comments that would allow for threads in decoding the BAM input. This is meaningless as long as we take so much time and space for converting BAM records into a large SAM record class","shortMessageHtmlLink":"Adding code in comments that would allow for threads in decoding the …"}},{"before":"be224b4d73bea9050701519b8b773a841d578049","after":null,"ref":"refs/heads/adding_Wall","pushedAt":"2023-06-26T19:52:07.030Z","pushType":"branch_deletion","commitsCount":0,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"}},{"before":"a513070b6fc8c4719cded9cead75a2ccfa0932f3","after":"5d59aad268bbac6b1076570493c068ec924dfd01","ref":"refs/heads/master","pushedAt":"2023-06-26T19:52:02.622Z","pushType":"pr_merge","commitsCount":2,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Merge pull request #41 from smithlabcode/adding_Wall\n\nadding `-Wall` to `CXXFLAGS`","shortMessageHtmlLink":"Merge pull request <a class=\"issue-link js-issue-link\" data-error-text=\"Failed to load title\" data-id=\"1775476589\" data-permission-text=\"Title is private\" data-url=\"https://github.com/smithlabcode/smithlab_cpp/issues/41\" data-hovercard-type=\"pull_request\" data-hovercard-url=\"/smithlabcode/smithlab_cpp/pull/41/hovercard\" href=\"https://github.com/smithlabcode/smithlab_cpp/pull/41\">#41</a> from smithlabcode/adding_Wall"}},{"before":null,"after":"be224b4d73bea9050701519b8b773a841d578049","ref":"refs/heads/adding_Wall","pushedAt":"2023-06-26T19:45:43.332Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"masarunakajima","name":"Masaru Nakajima","path":"/masarunakajima","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/42074889?s=80&v=4"},"commit":{"message":"adding Wall to CXXFLAGS","shortMessageHtmlLink":"adding Wall to CXXFLAGS"}},{"before":"1819650bec683e6b8a1ac732f99906c891a11927","after":"a513070b6fc8c4719cded9cead75a2ccfa0932f3","ref":"refs/heads/master","pushedAt":"2023-06-26T04:09:42.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Adding headers for the ints of specific numbers of bits","shortMessageHtmlLink":"Adding headers for the ints of specific numbers of bits"}},{"before":"6ef9ed6275d606b39e2d921356b1867643bd470d","after":"1819650bec683e6b8a1ac732f99906c891a11927","ref":"refs/heads/master","pushedAt":"2023-06-09T15:08:47.282Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Changing write_sam_header again so it directly takes sizes and not starts of chroms","shortMessageHtmlLink":"Changing write_sam_header again so it directly takes sizes and not st…"}},{"before":"b4ea70af9af685a006019010a4f5a07167592a6c","after":"6ef9ed6275d606b39e2d921356b1867643bd470d","ref":"refs/heads/master","pushedAt":"2023-06-09T14:55:43.989Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Changing the write_sam_header function so it works generally and not just when based on an abismal index","shortMessageHtmlLink":"Changing the write_sam_header function so it works generally and not …"}},{"before":"0e5fb682af1b3fe09b07e3eb2358f48a775258fb","after":"b4ea70af9af685a006019010a4f5a07167592a6c","ref":"refs/heads/master","pushedAt":"2023-03-09T22:31:13.558Z","pushType":"push","commitsCount":1,"pusher":{"login":"andrewdavidsmith","name":"Andrew Smith","path":"/andrewdavidsmith","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/7356801?s=80&v=4"},"commit":{"message":"Just cleaning commented code in GenomicRegion","shortMessageHtmlLink":"Just cleaning commented code in GenomicRegion"}}],"hasNextPage":false,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAADt0J79wA","startCursor":null,"endCursor":null}},"title":"Activity · smithlabcode/smithlab_cpp"}