So, somebody hands you a bunch of *ima files (raw data from a Siemens
MRI scanner) and you want to convert it to minc format:

1) Copy the raw data to the BIC file system

a) from a CD:

You have to find a machine with a cd rom drive on it: I think that
ursula or cordeila in the playpen and quince or grumio in the
wedge-shaped room have cd rom drives (otherwise you have to find a
linux box with a cd rom drive and for which you have access
priveleges)

From a unix machine w/ cd rom drive:

$> cp /CDROM/rest_of_path/on_cd_you_inserted/*ima /target/path/.

From a linux box: 

$> mount /dev/cdrom

Then, use ftp to transfer from cd rom to bottom:

$> ftp bottom

ftp> username: yourname
ftp> password: password
ftp> cd /target/path
ftp> lcd /dev/cdrom/rest_of_path/on_cd_you_inserted
ftp> prompt
ftp> mput *ima

This may take a few minutes.  BTW, using 'prompt' turns of interactive
mode so that the system will not ask you to confirm every file
transfer.

ftp> bye

b) from a DAT tape

To be filled in at some time when someone bugs me for such info.

c) from optical disk (od)

_IF_ you have an optical disk that conforms to the BIC system specs
(512 sectors per side/ 1024 bytes per sector -> makes for a 1.2 GB
disk), 

put the disk in device optical1 or optical2 (in the computer room; if
you don't know where this is, maybe you shouldn't be doing this...)

mount the disk:

$> mntopt1 r		or $> rmntopt2 r
$> cp /optical1/cdrom/rest_of_path/on_od_you_inserted/*ima /target/path/.

or 

$> cp /optical2/cdrom/rest_of_path/on_od_you_inserted/*ima /target/path/.


d) other storage media:

Let me know; I'll try to find out.


2) Pass the *ima files to the dicom server which will automagically
   transform them to minc files:

Here's the basic structure of the command:

path/command machine_to_use port_to_listen_to nickname_of_xfer_dir /target/path subject_no.  

(where subect_no is the first number in *ima filename)

Here's the actual incantation you use:

$> /usr/people/neelin/src/file/convert/siemens_to_dicom/siemens_dicom_send
bottom dicom NIL
/data/disk2/neelin/conversion/siemens_vision/native/dangubic/native
696 

In this example, we used siemens_dicom_send from Peter's directory
on the machine bottom, asked it to listen to the dicom port, sent the
minc files to the NIL transfer directory (/data/disk2/nilxfer/images)
took the *ima files from the long path on /data/disk2 and asked that
data for subject no. 696 be processed.