{"id":17281028,"url":"https://github.com/andrewdavidsmith/adapto-rs","last_synced_at":"2025-03-26T15:22:58.769Z","repository":{"id":167431542,"uuid":"643053381","full_name":"andrewdavidsmith/adapto-rs","owner":"andrewdavidsmith","description":"Remove adaptors from short-read bisulfite sequencing data (coded in rust)","archived":false,"fork":false,"pushed_at":"2024-08-21T20:32:22.000Z","size":74,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-01-31T16:42:08.781Z","etag":null,"topics":["sequence-alignment","sequencer","sequencing","sequencing-adapters","sequencing-data","sequencing-data-analysis","sequencing-reads"],"latest_commit_sha":null,"homepage":"","language":"Rust","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/andrewdavidsmith.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2023-05-20T01:16:54.000Z","updated_at":"2024-11-20T01:50:35.000Z","dependencies_parsed_at":"2024-08-12T04:23:10.197Z","dependency_job_id":"c3f50664-410c-4686-9af2-0cd197993b9d","html_url":"https://github.com/andrewdavidsmith/adapto-rs","commit_stats":null,"previous_names":["andrewdavidsmith/radapt","andrewdavidsmith/adaptrs","andrewdavidsmith/adapto.rs"],"tags_count":2,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/andrewdavidsmith%2Fadapto-rs","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/andrewdavidsmith%2Fadapto-rs/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/andrewdavidsmith%2Fadapto-rs/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/andrewdavidsmith%2Fadapto-rs/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/andrewdavidsmith","download_url":"https://codeload.github.com/andrewdavidsmith/adapto-rs/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245678959,"owners_count":20654747,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["sequence-alignment","sequencer","sequencing","sequencing-adapters","sequencing-data","sequencing-data-analysis","sequencing-reads"],"created_at":"2024-10-15T09:22:49.837Z","updated_at":"2025-03-26T15:22:58.742Z","avatar_url":"https://github.com/andrewdavidsmith.png","language":"Rust","funding_links":[],"categories":[],"sub_categories":[],"readme":"# adapto-rs\n\nRemove adaptors from short-read sequencing data. I needed a faster\ntool to remove adaptor sequences from reads for my own in my own data\nanalysis. I wrote this in Rust because I wanted to experiment with the\nlibraries for parallelism. It turns out this application does not need\nmuch in the way of parallelism. I think this code is reasonably fast.\nUnlike the tools I was using previously, `adapto-rs` does not use more\ncores concurrently than the number of threads specified by the user,\nwhich is an absolute requirement of my computing environment.\n\nIf you have `cargo` installed, you can build this code by doing:\n```console\ncargo build --release\n```\nin the root of the source directory, and then run\n```console\n./target/release/adapto-rs\n```\nto see the command line arguments.\n\nIf you need a static linked binary, which I currently do for a cluster\n(x86, linux) environment that I do not manage, you can build one on\nyour own Ubuntu machine by doing the following:\n```console\nsudo apt install musl-tools\nrustup target add x86_64-unknown-linux-musl\nRUSTFLAGS='-C target-feature=+crt-static' cargo build --release --target x86_64-unknown-linux-musl\n```\nI think I got a smaller and possibly faster binary with this instead:\n```console\nRUSTFLAGS='-C target-feature=+crt-static -C codegen-units=1 -C lto -C embed-bitcode=yes' cargo build --release --target x86_64-unknown-linux-musl\n```\nYou will then find the binary in the\n`./target/x86_64-unknown-linux-musl/release/` subdirectory.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fandrewdavidsmith%2Fadapto-rs","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fandrewdavidsmith%2Fadapto-rs","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fandrewdavidsmith%2Fadapto-rs/lists"}