Release of Bio-Formats 5.7.1
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David Gault (Staff) |
Release of Bio-Formats 5.7.1
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy Post images on http://www.imgur.com and include the link in your posting. ***** Dear all, Today we are releasing Bio-Formats 5.7.1 which includes the following changes: File format fixes and improvements: * Nikon NIS-Elements ND2 * improved parsing of Z position values * LaVision Imspector * corrected the value of time per FLIM channel * fixed a bug which saw the Z and T dimensions swapped * fixed a divide by zero exception * added a fix for incorrect time-base and number of channels * TIFF * added support for handling files with a FillOrder of 2 in which the bits in each byte are reversed * improved support for multi-channel ImageJ TIFF files greater than 4GB in size Performance improvements: * improved TIFF performance by using non-regexp String replacement (thanks to Thushara Wijeratna *) * improved TIFF handling of Strings for large metadata (thanks to T. Alexander Popiel *) * Allen Institute for Cell Science Documentation improvements: * updated documentation to reference support for ImageJ TIFFs * added links to format options page to user and developer index pages Full details can be found at https://docs.openmicroscopy.org//bio-formats/5.7.1/about/whats-new.html The software is available at: http://downloads.openmicroscopy.org/bio-formats/5.7.1 and will shortly be available from the Java-8 update site for Fiji users. Any problems or comments, please use the OME Forums or mailing lists: http://www.openmicroscopy.org/support Regards, The OME Team The University of Dundee is a registered Scottish Charity, No: SC015096 |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy Post images on http://www.imgur.com and include the link in your posting. ***** The new website for downloading is a little tricky to navigate. There used to be a single jar file and now there are lots of options. Could you provide simple instructions for the average user? Thank you Mike -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of David Gault (Staff) Sent: Wednesday, September 20, 2017 10:47 AM To: [hidden email] Subject: Release of Bio-Formats 5.7.1 ***** To join, leave or search the confocal microscopy listserv, go to: https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Flists.umn.edu%2Fcgi-bin%2Fwa%3FA0%3Dconfocalmicroscopy&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=ij1pmkhrBZ0YVxovJuHbRmXhnivjqOqEH9l3sSRKpNs%3D&reserved=0 Post images on https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.imgur.com&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=9irs3berRONADGntxmdWW9VN9IWi%2FaTYU8wUB68Pkgw%3D&reserved=0 and include the link in your posting. ***** Dear all, Today we are releasing Bio-Formats 5.7.1 which includes the following changes: File format fixes and improvements: * Nikon NIS-Elements ND2 * improved parsing of Z position values * LaVision Imspector * corrected the value of time per FLIM channel * fixed a bug which saw the Z and T dimensions swapped * fixed a divide by zero exception * added a fix for incorrect time-base and number of channels * TIFF * added support for handling files with a FillOrder of 2 in which the bits in each byte are reversed * improved support for multi-channel ImageJ TIFF files greater than 4GB in size Performance improvements: * improved TIFF performance by using non-regexp String replacement (thanks to Thushara Wijeratna *) * improved TIFF handling of Strings for large metadata (thanks to T. Alexander Popiel *) * Allen Institute for Cell Science Documentation improvements: * updated documentation to reference support for ImageJ TIFFs * added links to format options page to user and developer index pages Full details can be found at https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.openmicroscopy.org%2F%2Fbio-formats%2F5.7.1%2Fabout%2Fwhats-new.html&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=hxL0gd0s5EM2%2FFIcBYCaMsf5NJtfuYI4ilKPgTZpRfw%3D&reserved=0 The software is available at: https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fdownloads.openmicroscopy.org%2Fbio-formats%2F5.7.1&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=PRhg5sf3kaply%2FeZDYTepb6bWyYRnbb2KM7Jpii8eHM%3D&reserved=0 and will shortly be available from the Java-8 update site for Fiji users. Any problems or comments, please use the OME Forums or mailing lists: https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.openmicroscopy.org%2Fsupport&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=RnfijkQX0ov%2BhSK3SU07ovidxZ%2Bw3PVG0nkouh377Ak%3D&reserved=0 Regards, The OME Team The University of Dundee is a registered Scottish Charity, No: SC015096 |
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Sebastien Besson (Staff) |
Re: Release of Bio-Formats 5.7.1
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy Post images on http://www.imgur.com and include the link in your posting. ***** Hi Mike, thanks for raising the issue. The user-facing landing page for the latest Bio-Formats is available at https://www.openmicroscopy.org/bio-formats/downloads. This page includes a shortlist of the most common Bio-Formats packages: ImageJ, command-line tools, MATLAB/Octave. Since the release of the new website, the https://downloads.openmicroscopy.org domain now only contain raw listing of all artifacts associated a particular release of Bio-Formats. Does that answer your question or did you have a more specific use case in mind? Sebastien On 20 Sep 2017, at 16:04, MODEL, MICHAEL <[hidden email]<mailto:[hidden email]>> wrote: ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy Post images on http://www.imgur.com<http://www.imgur.com/> and include the link in your posting. ***** The new website for downloading is a little tricky to navigate. There used to be a single jar file and now there are lots of options. Could you provide simple instructions for the average user? Thank you Mike -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of David Gault (Staff) Sent: Wednesday, September 20, 2017 10:47 AM To: [hidden email]<mailto:[hidden email]> Subject: Release of Bio-Formats 5.7.1 ***** To join, leave or search the confocal microscopy listserv, go to: https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Flists.umn.edu%2Fcgi-bin%2Fwa%3FA0%3Dconfocalmicroscopy&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=ij1pmkhrBZ0YVxovJuHbRmXhnivjqOqEH9l3sSRKpNs%3D&reserved=0 Post images on https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.imgur.com&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=9irs3berRONADGntxmdWW9VN9IWi%2FaTYU8wUB68Pkgw%3D&reserved=0 and include the link in your posting. ***** Dear all, Today we are releasing Bio-Formats 5.7.1 which includes the following changes: File format fixes and improvements: * Nikon NIS-Elements ND2 * improved parsing of Z position values * LaVision Imspector * corrected the value of time per FLIM channel * fixed a bug which saw the Z and T dimensions swapped * fixed a divide by zero exception * added a fix for incorrect time-base and number of channels * TIFF * added support for handling files with a FillOrder of 2 in which the bits in each byte are reversed * improved support for multi-channel ImageJ TIFF files greater than 4GB in size Performance improvements: * improved TIFF performance by using non-regexp String replacement (thanks to Thushara Wijeratna *) * improved TIFF handling of Strings for large metadata (thanks to T. Alexander Popiel *) * Allen Institute for Cell Science Documentation improvements: * updated documentation to reference support for ImageJ TIFFs * added links to format options page to user and developer index pages Full details can be found at https://na01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.openmicroscopy.org%2F%2Fbio-formats%2F5.7.1%2Fabout%2Fwhats-new.html&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=hxL0gd0s5EM2%2FFIcBYCaMsf5NJtfuYI4ilKPgTZpRfw%3D&reserved=0 The software is available at: https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fdownloads.openmicroscopy.org%2Fbio-formats%2F5.7.1&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=PRhg5sf3kaply%2FeZDYTepb6bWyYRnbb2KM7Jpii8eHM%3D&reserved=0 and will shortly be available from the Java-8 update site for Fiji users. Any problems or comments, please use the OME Forums or mailing lists: https://na01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.openmicroscopy.org%2Fsupport&data=01%7C01%7Cmmodel%40KENT.EDU%7C8c89407ae2d94b39caa208d50037cb44%7Ce5a06f4a1ec44d018f73e7dd15f26134%7C1&sdata=RnfijkQX0ov%2BhSK3SU07ovidxZ%2Bw3PVG0nkouh377Ak%3D&reserved=0 Regards, The OME Team The University of Dundee is a registered Scottish Charity, No: SC015096 The University of Dundee is a registered Scottish Charity, No: SC015096 |
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