Re: [galaxy-dev] tiff files in galaxy
I was planning to use server code to tile the large images and then use one of a number of JavaScript libraries to render. Any browser should work without extensions . Jim did this with visigene in the genome browser years ago. - Robert On Dec 3, 2013, at 9:16 AM, Carl Eberhard carlfeberh...@gmail.com wrote: Hi, Robert As far as I know, all browsers besides Safari aren't set up to render tiff files by default. Are you using Safari to display the files in Galaxy? There are extensions for Firefox and Chrome that will allow you to display these files. Would that be an option? As a side note: creating, saving, and manipulating images and thumbnails would require Galaxy including a server side image processing library as a dependency. I'd like to do this at some point in the future as it would allow us other advantages too. Thanks, Carl On Thu, Nov 21, 2013 at 4:17 PM, Robert Baertsch baert...@soe.ucsc.edu wrote: Do you know a fast way to open large tiff files in galaxy ? The sniffer recognizes the type, but clicking on the eyeball on a large 82mb file just hangs. Downloading the file and opening in preview does work but it is clunky. Perhaps storing a low res version that would be display when clicking the eyeball would speed access. ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] tiff files in galaxy
VisiGene only sends gif and jpeg over the wire. -- James Taylor, Associate Professor, Biology/CS, Emory University On Tue, Dec 3, 2013 at 12:59 PM, Robert Baertsch baert...@soe.ucsc.edu wrote: I was planning to use server code to tile the large images and then use one of a number of JavaScript libraries to render. Any browser should work without extensions . Jim did this with visigene in the genome browser years ago. - Robert On Dec 3, 2013, at 9:16 AM, Carl Eberhard carlfeberh...@gmail.com wrote: Hi, Robert As far as I know, all browsers besides Safari aren't set up to render tiff files by default. Are you using Safari to display the files in Galaxy? There are extensions for Firefox and Chrome that will allow you to display these files. Would that be an option? As a side note: creating, saving, and manipulating images and thumbnails would require Galaxy including a server side image processing library as a dependency. I'd like to do this at some point in the future as it would allow us other advantages too. Thanks, Carl On Thu, Nov 21, 2013 at 4:17 PM, Robert Baertsch baert...@soe.ucsc.edu wrote: Do you know a fast way to open large tiff files in galaxy ? The sniffer recognizes the type, but clicking on the eyeball on a large 82mb file just hangs. Downloading the file and opening in preview does work but it is clunky. Perhaps storing a low res version that would be display when clicking the eyeball would speed access. ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] tiff files in galaxy
If you wanted to implement fancier tiling and display for tiff, the extension point for this would be in the datatype's display_data method. You can use this to do whatever you'd like, displaying an intermediate page with relevant code for tiling, etc. See datatypes/tabular.py's display_data method for an example of the chunking tabular display. On Tue, Dec 3, 2013 at 12:59 PM, Robert Baertsch baert...@soe.ucsc.eduwrote: I was planning to use server code to tile the large images and then use one of a number of JavaScript libraries to render. Any browser should work without extensions . Jim did this with visigene in the genome browser years ago. - Robert On Dec 3, 2013, at 9:16 AM, Carl Eberhard carlfeberh...@gmail.com wrote: Hi, Robert As far as I know, all browsers besides Safari aren't set up to render tiff files by default. Are you using Safari to display the files in Galaxy? There are extensions for Firefox and Chrome that will allow you to display these files. Would that be an option? As a side note: creating, saving, and manipulating images and thumbnails would require Galaxy including a server side image processing library as a dependency. I'd like to do this at some point in the future as it would allow us other advantages too. Thanks, Carl On Thu, Nov 21, 2013 at 4:17 PM, Robert Baertsch baert...@soe.ucsc.eduwrote: Do you know a fast way to open large tiff files in galaxy ? The sniffer recognizes the type, but clicking on the eyeball on a large 82mb file just hangs. Downloading the file and opening in preview does work but it is clunky. Perhaps storing a low res version that would be display when clicking the eyeball would speed access. ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
