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informatica:hp_xw4400_400sb_topspin31 [2014/02/20 11:02]
miquel [Permisos dins la carpeta ~topspin/prog/mod]
informatica:hp_xw4400_400sb_topspin31 [2014/06/26 11:52]
miquel [Problemes amb 'cf']
Line 939: Line 939:
   * [[http://149.236.99.91 | Bruker Gradient Amplifier - Device Information]]   * [[http://149.236.99.91 | Bruker Gradient Amplifier - Device Information]]
   * [[http://149.236.99.20 | BSMS Service Web - Main Menu]]   * [[http://149.236.99.20 | BSMS Service Web - Main Menu]]
 +
 +====== Problemes amb 'cf' ======
 +
 +Cada cop que s'executa la comanda ''cf'', surten en pantalla uns missatges d'avís per indicar que el programa no ha pogut crear uns enllaços (//hardlinks//) necessaris pel funcionament del Topspin i que caldrà crear-los a mà. Per exemple,
 +
 +<file>
 +hconfserver
 +
 +Operation not permitted
 +Cannot make link
 +link must be done manually with
 +  ln /opt/topspin3.1/prog/mod/go4 /opt/topspin3.1/prog/mod/acq_control
 +
 +Operation not permitted
 +Cannot make link
 +link must be done manually with
 +  ln /opt/topspin3.1/prog/wobble/pp_birds /opt/topspin3.1/prog/wobble/pulsprog_X
 +</file>
 +
 +Per resoldre provisionalment el problema,
 +  * he escrit un petit //script// amb les comandes a executar per crear els enllaços i copiar un fitxer (''shimcntl'') que de vegades desapareix quan s'executa la comanda ''cf''; i
 +  * he configurat el sistema perquè l'usuari //sermnuab// pugui executar aquest //script// amb els permisos necessaris.
 +
 +Així doncs, després d'executar la comanda 'cf' al Topspin,
 +
 +<WRAP center round tip 60%>
 +  * obre una finestra per comandes, i
 +  * escriu la següent ordre:\\ ''sudo /home/sermnuab/bin/fix_topspin31.sh''
 +</WRAP>
 +
 +el resultat de la comanda hauria de ser semblant a,
 +
 +<file>
 +sermnuab@cie-55-31:~$ sudo /home/sermnuab/bin/fix_topspin31.sh 
 +
 +creating file '/opt/topspin3.1/prog/wobble/pulsprog_X'
 +`/opt/topspin3.1/prog/wobble/pulsprog_X' => `/opt/topspin3.1/prog/wobble/pp_birds'
 +442373 -rw-rw-r-- 2 nmrsu nmrsu 686 Oct  5  2012 /opt/topspin3.1/prog/wobble/pp_birds
 +442373 -rw-rw-r-- 2 nmrsu nmrsu 686 Oct  5  2012 /opt/topspin3.1/prog/wobble/pulsprog_X
 +
 +creating file '/opt/topspin3.1/prog/mod/go'
 +`/opt/topspin3.1/prog/mod/go' => `/opt/topspin3.1/prog/mod/go4'
 +368896 -rwxr-xr-x 2 nmrsu nmrsu 3927964 Oct  5  2012 /opt/topspin3.1/prog/mod/go
 +368896 -rwxr-xr-x 2 nmrsu nmrsu 3927964 Oct  5  2012 /opt/topspin3.1/prog/mod/go4
 +
 +creating file '/opt/topspin3.1/prog/mod/acq_control'
 +`/opt/topspin3.1/prog/mod/acq_control' => `/opt/topspin3.1/prog/mod/go4'
 +368896 -rwxr-xr-x 3 nmrsu nmrsu 3927964 Oct  5  2012 /opt/topspin3.1/prog/mod/acq_control
 +368896 -rwxr-xr-x 3 nmrsu nmrsu 3927964 Oct  5  2012 /opt/topspin3.1/prog/mod/go4
 +
 +creating file '/opt/topspin3.1/prog/mod/shimcntl'
 +`/home/sermnuab/bin/shimcntl' -> `/opt/topspin3.1/prog/mod/shimcntl'
 +368675 -rwxr-xr-x 1 nmrsu nmrsu 2988748 Jun 26 11:46 /opt/topspin3.1/prog/mod/shimcntl
 +</file>
 +
 +Pels més curiosos, aquest és el contingut del script,
 +
 +<code>
 +#!/bin/sh
 +#******************************************************************
 +#
 +# Copyright (c) 2014
 +# SeRMN, Universitat Autonoma de Barcelona
 +#
 +#******************************************************************
 +# DESCRIPTION
 +#
 +# When TopSpin 3.x runs on a Debian GNU/Linux, the 'cf' command
 +# fails to create several hard links needed to run the software,
 +# and to (re)create the program 'shimcntl'.
 +
 +# To fix this problem,
 +# 1. run 'cf' and ignore all warnings and errors about not
 +#    being able to create hardlinks.
 +# 2. run this script. It requires root permissions to create, hence,
 +#     this script upon running the 'cf' command.
 +#
 +#******************************************************************
 +
 +echo ""
 +
 +# link pulsprog_X to pp_birds
 +echo "creating file '/opt/topspin3.1/prog/wobble/pulsprog_X'"
 +ln -fv /opt/topspin3.1/prog/wobble/pp_birds /opt/topspin3.1/prog/wobble/pulsprog_X
 +ls -li /opt/topspin3.1/prog/wobble/pp_birds /opt/topspin3.1/prog/wobble/pulsprog_X 
 +echo ""
 +
 +# link go to go4
 +echo "creating file '/opt/topspin3.1/prog/mod/go'"
 +ln -fv /opt/topspin3.1/prog/mod/go4 /opt/topspin3.1/prog/mod/go
 +ls -li /opt/topspin3.1/prog/mod/go /opt/topspin3.1/prog/mod/go4
 +echo ""
 +
 +# link acq_control to go4
 +
 +# NOTE: apparently, this link is only required on the AvanceIII-600.
 +# Remove or comment out these lines on the AvanceIII-400sb.
 +#
 +echo "creating file '/opt/topspin3.1/prog/mod/acq_control'"
 +ln -fv /opt/topspin3.1/prog/mod/go4 /opt/topspin3.1/prog/mod/acq_control
 +ls -li /opt/topspin3.1/prog/mod/go4  /opt/topspin3.1/prog/mod/acq_control
 +echo ""
 +
 +# copy shimcntl to /opt/topspin3.1/prog/mod/
 +echo "creating file '/opt/topspin3.1/prog/mod/shimcntl'"
 +cp -fv /home/sermnuab/bin/shimcntl /opt/topspin3.1/prog/mod/
 +chown nmrsu:nmrsu /opt/topspin3.1/prog/mod/shimcntl
 +chmod 755 /opt/topspin3.1/prog/mod/shimcntl
 +ls -li /opt/topspin3.1/prog/mod/shimcntl
 +echo ""
 +</code>
 +
 +i aquesta la línia on es configura el programa ''sudo'' perquè //sermnuab// pugui executar aquest //script// amb permisos de superusuari (o //root//).
 +
 +<file>
 +# Allow sermnuab to fix some problems related to running Topspin 'cf' command.
 +sermnuab  ALL=(root) NOPASSWD: /home/sermnuab/bin/fix_topspin31.sh
 +</file>
  
  
  
  
informatica/hp_xw4400_400sb_topspin31.txt · Last modified: 2020/07/09 13:05 by miquel