Directory Structure | Permission Denied | Space Consumption | Help | Organizing Data

Directory Structure

brodmann% g 30140304
0 /raid0/structural/MR6/9516195/30140304
0 /raid0/structural/MR6/9516195/30140304/05_ACPC
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/cpfalzgr
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/gene
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/mkiguta
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/masks
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/masks/cut
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/masks/segment
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/masks/trim
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/rois
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/rois/regional
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/rois/segment
0 /raid0/structural/MR6/9516195/30140304/05_ACPC/standard/rois/surface
0 /raid0/structural/MR6/9516195/30140304/T1_001
0 /raid0/structural/MR6/9516195/30140304/T1_002
0 /raid0/structural/MR6/9516195/30140304/T2_003
0 /raid0/structural/MR6/9516195/30140304/T2_004
0 /raid0/structural/MR6/9516195/30140304/T2_004/cpfalzgr
Last update Apr 7 05:39

/raid0/structural/MR6/9516195/30140304/05_ACPC/mkiguta

/ - Where it all begins...
/raid0 - disk device name
/raid0/structural - data type/classification
/raid0/structural/MR6 - one more layer of specification
/raid0/structural/MR6/9516195 - hospital id associated with data
/raid0/structural/MR6/9516195/30140304
- unique identifier for MR scan, MRQID
/raid0/structural/MR6/9516195/30140304/05_ACPC
- MR series division level
/raid0/structural/MR6/9516195/30140304/05_ACPC/mkiguta
- User specific files/data

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Permission Denied

• Why?
  • file/program is not executable
    • which brains2

    /usr/local/brains2/bin/brains2

    • ls -l /usr/local/brains2/bin/brains2

    -rwxrwxr-x 1 root prog 688564 Feb 13 16:51 /usr/local/brains2/bin/brains2

    • ls -ld /usr/local/brains2/bin

    drwxrwxr-x 2 root root 16384 Nov 27 08:11 /usr/local/brains2/bin

  • directory is restricted to group or owner only.
    • ls -ld /raid0/homes/gene/Ccode

      drwxr-x--- 18 gene user 4096 Jan 8 09:54 /raid0/homes/gene/Ccode
      

• Who to contact

  if you need access or you want data removedowner, admin

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Space Consumption

• df
• df -h /raid0

  Filesystem	Size	Used	Avail	Use%	Mounted on
  gaba:/raid0	801G	741G	44G	95%	/IPLlinux/gaba+raid0

• du
  • du -sh /raid0/homes/gene
    • 6.6G /raid0/homes/gene
  • du -sk /raid0/homes/gene/src/brains2
    • 1073892 /raid0/homes/gene/src/brains2
• ls & wildcards * ?

  ls -l
  ls -R
  ls -t
  ls -sS

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Help

• man , apropos
  • The UNIX alternative to books
  • Steep learning curve
  • No pages for IPL software

• program -h, program –help, program
• Linux how-to's
  • http://www.linux-tutorial.info/
  • http://www.tldp.org/

• Other users
• ../../gnatsweb/index.html
• brains2 toolbar->help
  

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Organizing Data

• Changing a filename
  • mv notes presentation.txt

• Relocating a file
  • mv notes presentations
  • mv notes presentations/filesystems.txt

• Oops
  • Backup cycle

• Making copies
  • cp notes project/040407/notes
  • cp -r project/040407 archives

• Packing up finished work
  • tar -czf project/040407.tgz project/040407
  • rm -rf project/040407
    

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Latest update May 7, 2005 Webpages maintained by Hans J. Johnson. E-mail the webmaster