Difference between revisions of "SweStore/iRODS icommand"
Line 5: | Line 5: | ||
1. Log in to SNIC cluster<br> | 1. Log in to SNIC cluster<br> | ||
2. Execute: | 2. Execute: | ||
+ | module load irods <br> | ||
+ | iinit <br> | ||
− | |||
− | |||
After activating the iRODS icommands, you will be placed in one of your projects. if you run "ils", you will then see a listing of files and folders in that project, something like this: | After activating the iRODS icommands, you will be placed in one of your projects. if you run "ils", you will then see a listing of files and folders in that project, something like this: | ||
Revision as of 08:44, 6 December 2013
For accessing the Swestore national storage, we use (since Nov 2013 iRODS, and more specifically the iRODS client called "icommands", which is a set of commands similar to the unix commands "ls", "cd", "imkdir" etc, but with an "i" in front, plus two FTP-like commands: "iput" and "iget".
The iRODS icommands client is loaded through the module system.
1. Log in to SNIC cluster
2. Execute: module load irods
iinit
After activating the iRODS icommands, you will be placed in one of your projects. if you run "ils", you will then see a listing of files and folders in that project, something like this:
[samuel@kalkyl4 ~]$ ils /ssUppnexZone/proj/b2011221: C- /ssUppnexZone/proj/b2011221/firstRun
Navigate around To enter one of the (or the only) folder(s), do:
icd [proj-id]
... in this case:
icd firstrun
To switch to another project, use
icd ..
to back up a level. After that, you can change to another project or folder using icd as previously
icd b2011222
Upload files To upload the above mentioned folder, do (-r is needed to recurse into directories):
iput -r [a local folder]
For single files, the -r flag is not needed:
iput [a local file]
To list the newly uploaded file/directory:
ils
To create folders, do:
imkdir [folder-name]
If you want to verify the upload outside of iRODS, there's a utility called ssverify.sh that will let you do that.
Downloading files To download a file again, do:
iget [a file in iRODS]
... or, for folders, do it recursively:
iget -r [a folder in iRODS]
File removal To remove a file, you'll like need to use -f to irm in order to bypass the use of a trash area, which is currently not supported at Uppmax.
More hints You can have iput show the progress with the -P flag If you want to be placed in a particular directory when you load the irods module, you can create a file called
$HOME/.irods/.irodsEnv
containing
irodsHome '/ssUppnexZone/proj/myproj' irodsCwd '/ssUppnexZone/proj/myproj'
where
myproj
is replaced by your project id. Read more info about the respective i-commands with "[command] -h"