{"id":16519076,"url":"https://github.com/peter-t-ruehr/checkpoint_converter","last_synced_at":"2025-07-01T08:37:05.551Z","repository":{"id":159300575,"uuid":"362455253","full_name":"Peter-T-Ruehr/checkpoint_converter","owner":"Peter-T-Ruehr","description":"Converts any image stack to a Stratovan Checkpoint file (*.ckpt) keeping specimen names and voxel sizes.","archived":false,"fork":false,"pushed_at":"2021-09-07T13:34:23.000Z","size":29,"stargazers_count":0,"open_issues_count":0,"forks_count":1,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-03-02T22:20:45.878Z","etag":null,"topics":["biology","botany","checkpoint","geometric-morphometrics","image-stacks","imagej","imagej-macro","micro-ct","mri","r","tomography","zoology"],"latest_commit_sha":null,"homepage":"https://royalsocietypublishing.org/doi/10.1098/rspb.2021.0616","language":"ImageJ Macro","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"bsd-3-clause","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/Peter-T-Ruehr.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":"2021-04-28T12:13:40.000Z","updated_at":"2023-07-18T09:04:46.000Z","dependencies_parsed_at":"2023-06-11T20:45:12.813Z","dependency_job_id":null,"html_url":"https://github.com/Peter-T-Ruehr/checkpoint_converter","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/Peter-T-Ruehr/checkpoint_converter","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Peter-T-Ruehr%2Fcheckpoint_converter","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Peter-T-Ruehr%2Fcheckpoint_converter/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Peter-T-Ruehr%2Fcheckpoint_converter/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Peter-T-Ruehr%2Fcheckpoint_converter/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/Peter-T-Ruehr","download_url":"https://codeload.github.com/Peter-T-Ruehr/checkpoint_converter/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Peter-T-Ruehr%2Fcheckpoint_converter/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":262929403,"owners_count":23386356,"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":["biology","botany","checkpoint","geometric-morphometrics","image-stacks","imagej","imagej-macro","micro-ct","mri","r","tomography","zoology"],"created_at":"2024-10-11T16:45:00.326Z","updated_at":"2025-07-01T08:37:05.526Z","avatar_url":"https://github.com/Peter-T-Ruehr.png","language":"ImageJ Macro","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Checkpoint converterfor Imagej/Fiji\n\n[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.5482947.svg)](https://doi.org/10.5281/zenodo.5482947)\n\nImagej / Fiji [1,2] macro that converts an image stack into a \\*.ckpt file and its associated tif-stack for the Stratovan Checkpoint(TM) landmarking software [3].\n\nTested for Stratovan Checkpooint(TM) Version 2020.10.13.0859 on Win x64 and some earlier versions.\n\n Additional features:\n * reads pixel size from tiffs (user can change the value if necessary)\n * optional contrast enhancement \u0026 conversion to 8bit\n   \n * Should run on Linux, Win \u0026 iOS.\n\nWe'd appreciate a citation of the original publication when you use this macro:\n\nRühr et al. (2021): Juvenile ecology drives adult morphology in two insect orders. Proceedings of the Royal Society B 288: 20210616. https://doi.org/10.1098/rspb.2021.0616\n\nIf you experience any issues, please contact me at ruehr@uni-bonn.de.\n\nHappy landmarking!\n\nPeter T. Rühr\n\n### References:\n\n[1] Schneider, C. A., Rasband, W. S., \u0026 Eliceiri, K. W. (2012). NIH Image to ImageJ: 25 years of image analysis. Nature Methods, 9, 671–675. (doi: 10.1038/nmeth.2089)\n\n[2] Schindelin J et al. 2012 Fiji: an open-source platform for biological-image analysis. Nat. Methods 9, 676–682. (doi: 10.1038/nmeth.2019)\n\n[3] Stratovan Corporation, Davis, CA: https://www.stratovan.com/products/checkpoint\n\n### Version history\nv.  | changes\n------------- | -------------\n1.0.0  | initial upload\n1.1.0  | conversion to 8-bit is now optional: A comment from the Stratovan Checkpoint team explained that keeping the 16-bit density can be beneficial since it keeps the Hounsfield unit calibration that may be stored in the grey values intact.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpeter-t-ruehr%2Fcheckpoint_converter","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fpeter-t-ruehr%2Fcheckpoint_converter","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpeter-t-ruehr%2Fcheckpoint_converter/lists"}