{"action":"created","issue":{"url":"https://api.github.com/repos/openmicroscopy/bioformats/issues/1983","repository_url":"https://api.github.com/repos/openmicroscopy/bioformats","labels_url":"https://api.github.com/repos/openmicroscopy/bioformats/issues/1983/labels{/name}","comments_url":"https://api.github.com/repos/openmicroscopy/bioformats/issues/1983/comments","events_url":"https://api.github.com/repos/openmicroscopy/bioformats/issues/1983/events","html_url":"https://github.com/openmicroscopy/bioformats/issues/1983","id":106942018,"number":1983,"title":"Exporting single plane PNG and TIFF files with bfconvert get corrupted","user":{"login":"nylocx","id":3329124,"avatar_url":"https://avatars.githubusercontent.com/u/3329124?v=3","gravatar_id":"","url":"https://api.github.com/users/nylocx","html_url":"https://github.com/nylocx","followers_url":"https://api.github.com/users/nylocx/followers","following_url":"https://api.github.com/users/nylocx/following{/other_user}","gists_url":"https://api.github.com/users/nylocx/gists{/gist_id}","starred_url":"https://api.github.com/users/nylocx/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nylocx/subscriptions","organizations_url":"https://api.github.com/users/nylocx/orgs","repos_url":"https://api.github.com/users/nylocx/repos","events_url":"https://api.github.com/users/nylocx/events{/privacy}","received_events_url":"https://api.github.com/users/nylocx/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":3,"created_at":"2015-09-17T09:07:32Z","updated_at":"2016-05-03T09:19:23Z","closed_at":"2016-05-03T09:19:23Z","body":"I tested this with the latest release of the Bioformats jar file (5.14 at time of writing)\r\n\r\nMy goal was to export all timepoints of a lsm file to single RGB16 PNG images.\r\n\r\nSteps to reproduce:\r\n1. I used a .lsm file with 1000 timepoints, 3 channels and an XYZ resolution of 512x512x1.\r\n2. Command line for bfconvert was:\r\n```./bfconvert -merge 'input.lsm' 'output_%t.png'```\r\n3. I used pngcheck, imagemagick and graphicsmage to test the resulting pngs (apng images to be precise) which all showed me that they where corrupted.\r\n\r\nI then tested it with the .tif extension so I could eventually convert the TIFF images to PNG in a second step but they get corrupted too. Something about an illegal entry for the tiff directory.\r\n\r\nI hope that I provided enough information. If you need any more just let me know."},"comment":{"url":"https://api.github.com/repos/openmicroscopy/bioformats/issues/comments/216476133","html_url":"https://github.com/openmicroscopy/bioformats/issues/1983#issuecomment-216476133","issue_url":"https://api.github.com/repos/openmicroscopy/bioformats/issues/1983","id":216476133,"user":{"login":"sbesson","id":1355463,"avatar_url":"https://avatars.githubusercontent.com/u/1355463?v=3","gravatar_id":"","url":"https://api.github.com/users/sbesson","html_url":"https://github.com/sbesson","followers_url":"https://api.github.com/users/sbesson/followers","following_url":"https://api.github.com/users/sbesson/following{/other_user}","gists_url":"https://api.github.com/users/sbesson/gists{/gist_id}","starred_url":"https://api.github.com/users/sbesson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sbesson/subscriptions","organizations_url":"https://api.github.com/users/sbesson/orgs","repos_url":"https://api.github.com/users/sbesson/repos","events_url":"https://api.github.com/users/sbesson/events{/privacy}","received_events_url":"https://api.github.com/users/sbesson/received_events","type":"User","site_admin":false},"created_at":"2016-05-03T09:19:23Z","updated_at":"2016-05-03T09:19:23Z","body":"Closing this as #1857 is merged. This will be included in Bio-Formats 5.2.0."}}