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OOD IGV

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   * desktop open [[File:A.ood desktop.png|700px]]
 
   * desktop open [[File:A.ood desktop.png|700px]]
 
# start a "Terminal"  
 
# start a "Terminal"  
   * open terminal app [[File:B.ood with terminal.png|700px]]
+
   * open terminal app [[File:B.ood with terminal highlight.jpg|700px]]
 
# in terminal, enter  <nowiki>/share/apps/ngs-ccts/ood-igv/2.5.sh</nowiki>
 
# in terminal, enter  <nowiki>/share/apps/ngs-ccts/ood-igv/2.5.sh</nowiki>
 
   * enter path to installer [[File:C.ood terminal setup 25.png|700px]]  
 
   * enter path to installer [[File:C.ood terminal setup 25.png|700px]]  

Revision as of 14:11, 15 October 2019

First time setup

  1. get a cheaha account (see Cheaha_GettingStarted)
  2. launch an interactive desktop with OOD https://rc.uab.edu
* Requst an OOD Desktop
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/c/cc/A.ood_start_desktop.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/c/cc/A.ood_start_desktop.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_263fa97-1.png' @ error/convert.c/ConvertImageCommand/3015.
* Set Request RAM and HOURS
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/0/0b/A.ood_set_mem.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/0/0b/A.ood_set_mem.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_dea7a8-1.png' @ error/convert.c/ConvertImageCommand/3015.
* Open the desktop, once running
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/a/a1/A.ood_launch_desktop.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/a/a1/A.ood_launch_desktop.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_558cd10-1.png' @ error/convert.c/ConvertImageCommand/3015.
* desktop open
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/a/ae/A.ood_desktop.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/a/ae/A.ood_desktop.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_3dcc38e-1.png' @ error/convert.c/ConvertImageCommand/3015.
  1. start a "Terminal"
 * open terminal app B.ood with terminal highlight.jpg
  1. in terminal, enter /share/apps/ngs-ccts/ood-igv/2.5.sh
* enter path to installer
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/d/d8/C.ood_terminal_setup_25.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/d/d8/C.ood_terminal_setup_25.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_25c2dd0-1.png' @ error/convert.c/ConvertImageCommand/3015.
  1. that will install IGV locally, and launch it.
 * installer will scroll a lot of text, some in alarming colors. 
 * a few seconds after the text stop, the desktop icon and loading bar will appear
* installer finished, IGV loading
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/3/3f/D.ood_setup_ivg_loading.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/3/3f/D.ood_setup_ivg_loading.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_4955153-1.png' @ error/convert.c/ConvertImageCommand/3015.


Running later

  1. Setup should create a desktop icon called "IGV-2.5.sh"
*
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/7/7b/G.ood_desktop_with_icon.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/7/7b/G.ood_desktop_with_icon.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_54ad520-1.png' @ error/convert.c/ConvertImageCommand/3015.
  1. In the future, you can just start OOD, then click on "IGV-2.5.sh"
*
Error creating thumbnail: convert: unable to open image `/research/apps/rnb/docs/htdocs/tgw/images/d/de/E.ood_igv_loading.png': No such file or directory @ error/blob.c/OpenBlob/2589.
convert: unable to open file `/research/apps/rnb/docs/htdocs/tgw/images/d/de/E.ood_igv_loading.png' @ error/png.c/ReadPNGImage/3639.
convert: missing an image filename `/tmp/transform_22e247f-1.png' @ error/convert.c/ConvertImageCommand/3015.

Script source code

Code can be found at https://gitlab.rc.uab.edu/CCTS-Informatics-Pipelines/ood-igv