{"id":13823103,"url":"https://github.com/WolframResearch/BioFormatsLink","last_synced_at":"2025-07-08T16:31:24.584Z","repository":{"id":110871851,"uuid":"105284074","full_name":"WolframResearch/BioFormatsLink","owner":"WolframResearch","description":"Package for interacting with Bio-Formats library in the Wolfram Language","archived":false,"fork":false,"pushed_at":"2022-11-29T13:03:29.000Z","size":69834,"stargazers_count":15,"open_issues_count":0,"forks_count":8,"subscribers_count":21,"default_branch":"master","last_synced_at":"2024-08-05T09:11:32.225Z","etag":null,"topics":["bio-formats","java","jlink","library","mathematica","microscopy","wolfram-language"],"latest_commit_sha":null,"homepage":"","language":"Mathematica","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"gpl-2.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/WolframResearch.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"LICENSE.txt","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}},"created_at":"2017-09-29T14:50:45.000Z","updated_at":"2024-06-28T20:39:15.000Z","dependencies_parsed_at":null,"dependency_job_id":"c3e48ff6-c48a-4dd5-a384-fa14548debac","html_url":"https://github.com/WolframResearch/BioFormatsLink","commit_stats":null,"previous_names":[],"tags_count":6,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/WolframResearch%2FBioFormatsLink","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/WolframResearch%2FBioFormatsLink/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/WolframResearch%2FBioFormatsLink/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/WolframResearch%2FBioFormatsLink/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/WolframResearch","download_url":"https://codeload.github.com/WolframResearch/BioFormatsLink/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":225449311,"owners_count":17476069,"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":["bio-formats","java","jlink","library","mathematica","microscopy","wolfram-language"],"created_at":"2024-08-04T09:00:21.566Z","updated_at":"2024-11-20T00:30:53.819Z","avatar_url":"https://github.com/WolframResearch.png","language":"Mathematica","funding_links":[],"categories":["Bioinformatics"],"sub_categories":[],"readme":"# BioFormatsLink for Wolfram Language\n\n![BioFormatsLinkLogo](logo.png)\n\nBioFormatsLink is a package for interacting with [Bio-Formats](http://www.openmicroscopy.org/bio-formats/) library in the [Wolfram Language](https://www.wolfram.com/language/). BioFormatsLink supports 12.1 and later versions of Wolfram Language deployments for the desktop, including [Wolfram Desktop](https://www.wolfram.com/desktop/) and [Mathematica](https://www.wolfram.com/mathematica/).\n\n### Building BioFormatsLink\n    \nTo build a `.paclet` file:\n\n* Build documentation using Ant's script in Scripts/docbuild.xml.\n* Open Scripts/assemblePaclet.wl in the Wolfram system.\n* Run the entire package.\n* The `.paclet` file will be created in `/full/path/to/BioFormatsLink/build/date-time` directory.\n\n### Installing the BioFormatsLink release\n\nThe BioFormatsLink release comes in the form of a `.paclet` file, which contains the entire package and its documentation. Download the latest release from the [Github repo's releases page](https://github.com/WolframResearch/BioFormatsLink/releases). To install, run the following command in the Wolfram Language:\n\n    PacletInstall[\"/full/path/to/BioFormatsLink-version.paclet\"]\n\nThis will permanently install the BioFormatsLink paclet. The Wolfram Language will always use the latest installed version of BioFormatsLink. Installed versions can be enumerated using the command:\n\n    PacletFind[\"BioFormatsLink\"]\n\nAnd all versions can be uninstalled using the command:\n\n    PacletUninstall[\"BioFormatsLink\"]\n    \n \n### Using BioFormatsLink\n\nTo access the documentation, open the notebook interface help viewer, and search for BioFormatsLink/tutorial/ImportingDataFromBioFormats. This will open a tutorial on how to import data using BioFormatsLink.\n\nTo start, load the BioFormatLink package, and try opening an image file.\n\n    Needs[\"BioFormatsLink`\"]\n    Import[\"ExampleData/spikey.tiff\", \"BioFormats\"] \n    \n### More...\n\nSee the following files for more information:\n\n* [LICENSE.txt](LICENSE.txt) - BioFormatsLink license\n* [CONTRIBUTING.md](CONTRIBUTING.md) - Guidelines for contributing to BioFormatsLink\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FWolframResearch%2FBioFormatsLink","html_url":"https://awesome.ecosyste.ms/projects/github.com%2FWolframResearch%2FBioFormatsLink","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FWolframResearch%2FBioFormatsLink/lists"}