En comptes d'instal·lar les diferents versions del ParaVision des dels DVD d'instal·lació, provo a tranferir les carpetes de les diferents versions del ParaVision instal·lades a l'estació de treball HP xw4100 actual,

Aquestes són les particions definides als dos discos durs de l'estació de treball actual:

[root@cie-55-30 opt]# df -hl
Filesystem            Size  Used Avail Use% Mounted on
/dev/sda5              20G  5.3G   14G  29% /
/dev/sda2             494M   23M  446M   5% /boot
/dev/sda3              20G   18G  320M  99% /home
/dev/sda7             104G   89G   11G  90% /opt
none                  1.8G     0  1.8G   0% /dev/shm
/dev/sdb1             459G  270G  166G  62% /BiospecData

Un cop transferit el contingut d'interès a /opt, caldrà comprovar què hi ha a /home i decidir què cal transferir.

[root@cie-55-30 opt]# du -hs /opt/*
8.0K    /opt/backupHOWTO.sxw
17M     /opt/dd-4096-rser-file
33M     /opt/dd-8192-rser-file
116K    /opt/first_steps_readme-new.pdf
20M     /opt/gnuplot-4.0.0
2.1M    /opt/gnuplot-4.0.0.tar.gz
83M     /opt/hp
16K     /opt/lost+found
41G     /opt/Photorec
37G     /opt/PV4.0
15M     /opt/PV4.0 Distribution Documentation
2.0G    /opt/PV5.0
9.5G    /opt/Pv5.1
8.0K    /opt/RECOVERED_FILES
335M    /opt/Technical Documentation for BioSpec and PharmaScan Systems

Si descartem la carpeta /opt/Photorec, les carpetes a transferir fan un total aproximat de 60 GBytes, i no hauríem de tenir problemes per transferir-les al volum lògic /opt de 100 GBytes a la nova estació de treball.

El primer intent de transferir la carpeta /opt/PV5.0 dóna un error,

root@cie-50-205:/opt# rsync -Hvax --progress --stats sermn@cie-55-30.uab.cat:/opt/PV5.0 .
The authenticity of host 'cie-55-30.uab.cat (158.109.55.30)' can't be established.
RSA key fingerprint is f0:85:77:15:56:fe:91:c0:b0:b9:ed:ec:59:bf:30:60.
Are you sure you want to continue connecting (yes/no)? yes
Warning: Permanently added 'cie-55-30.uab.cat,158.109.55.30' (RSA) to the list of known hosts.
sermn@cie-55-30.uab.cat's password: 
protocol version mismatch - is your shell clean?
(see the rsync man page for an explanation)
rsync error: protocol incompatibility (code 2) at compat.c(62)
rsync: connection unexpectedly closed (0 bytes received so far) [Receiver]
rsync error: error in rsync protocol data stream (code 12) at io.c(226) [Receiver=3.1.1]
root@cie-50-205:/opt# 

Als següents enllaços s'explica una possible causa de l'error i cóm resoldre'l: esborrar o canviar el nom del fitxer .bashrc,

• Rsync seems incompatible with .bashrc (causes “is your shell clean?”)
• rsync error: protocol incompatibility
• WTF! protocol version mismatch - is your shell clean?

malauradament, la solució de canviar el nom del fitxer ~/.bashrc no funciona en aquest cas,

root@cie-50-205:/opt# rsync -Hvax --progress --stats sermn@cie-55-30.uab.cat:/opt/PV5.0 .
sermn@cie-55-30.uab.cat's password: 
protocol version mismatch - is your shell clean?
(see the rsync man page for an explanation)
rsync error: protocol incompatibility (code 2) at compat.c(62)
rsync: connection unexpectedly closed (0 bytes received so far) [Receiver]
rsync error: error in rsync protocol data stream (code 12) at io.c(226) [Receiver=3.1.1]

i amb una cerca més exhaustiva a Internet trobo que el problema és que la versió de rsync a l'estació de treball del BioSpec és massa vella i que no és compatible amb el protocol de la versió de rsync a la nova estació de treball. Per resoldre el problema cal indicar a aquesta darrera que empri una versió anterior del protocol fent servir l'opció –protocol=“30”.

root@cie-50-205:/opt# rsync -Hvax --verbose --progress --stats --protocol="30" sermn@cie-55-30.uab.cat:/opt/PV5.0 .                                       
opening connection using: ssh -l sermn cie-55-30.uab.cat rsync --server --sender -vvlHogDtprxe.iLsfx . /opt/PV5.0  (10 args)
sermn@cie-55-30.uab.cat's password: 
receiving file list ... 
expand file_list to 4000 bytes, did move
expand file_list to 8000 bytes, did move
expand file_list to 16000 bytes, did move
expand file_list to 32000 bytes, did move
opendir(PV5.0/prog/curdir/nmrsu/ParaVision/keys): Permission denied
opendir(PV5.0/prog/curdir/nmrsu/ParaVision/pvDatMan): Permission denied
opendir(PV5.0/prog/curdir/nmrsu/ParaVision/shimTool): Permission denied
expand file_list to 64000 bytes, did move
opendir(PV5.0/prog/curdir/nmrsu/keystore): Permission denied
opendir(PV5.0/prog/curdir/mri/ParaVision/keys): Permission denied
opendir(PV5.0/prog/curdir/mri/ParaVision/pvDatMan): Permission denied
opendir(PV5.0/prog/curdir/mri/ParaVision/shimTool): Permission denied
opendir(PV5.0/prog/curdir/mri/ParaVision/pvCam): Permission denied
opendir(PV5.0/prog/curdir/mri/keystore): Permission denied
opendir(PV5.0/prog/curdir/montaner/ParaVision/keys): Permission denied
opendir(PV5.0/prog/curdir/montaner/ParaVision/xtip): Permission denied
opendir(PV5.0/prog/curdir/montaner/ParaVision/pvDatMan): Permission denied
opendir(PV5.0/prog/curdir/montaner/keystore): Permission denied
opendir(PV5.0/prog/curdir/carus/ParaVision/keys): Permission denied
opendir(PV5.0/prog/curdir/carus/ParaVision/xtip): Permission denied
opendir(PV5.0/prog/curdir/carus/ParaVision/pvDatMan): Permission denied
opendir(PV5.0/prog/curdir/carus/keystore): Permission denied
expand file_list to 128000 bytes, did move
expand file_list to 256000 bytes, did move
[Receiver] expand file_list pointer array to 524288 bytes, did move
34202 files to consider
delta-transmission enabled
PV5.0/
...
PV5.0/prog/wobble/pp_birds => PV5.0/prog/wobble/pulsprog_X
PV5.0/prog/xtip/xtip
      2,605,728 100%    4.29MB/s    0:00:00 (xfr#29745, to-chk=2/34202)
total: matches=0  tag_hits=0  false_alarms=0 data=2030754927

rsync[29381] (receiver) heap statistics:
  arena:        2326528   (bytes from sbrk)
  ordblks:            4   (chunks not in use)
  smblks:             0
  hblks:              4   (chunks from mmap)
  hblkhd:       1327104   (bytes from mmap)
  allmem:       3653632   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:            0
  uordblks:     2191888   (bytes used)
  fordblks:      134640   (bytes free)
  keepcost:      134304   (bytes in releasable chunk)

rsync[29306] (generator) heap statistics:
  arena:        2134016   (bytes from sbrk)
  ordblks:            2   (chunks not in use)
  smblks:             2
  hblks:              4   (chunks from mmap)
  hblkhd:       1327104   (bytes from mmap)
  allmem:       3461120   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:           64
  uordblks:     1864160   (bytes used)
  fordblks:      269856   (bytes free)
  keepcost:      269520   (bytes in releasable chunk)

Number of files: 34,202 (reg: 29,803, dir: 4,260, link: 139)
Number of regular files transferred: 29,745
Total file size: 2,052,694,727 bytes
Total transferred file size: 2,030,754,927 bytes
Literal data: 2,030,754,927 bytes
Matched data: 0 bytes
File list size: 808,631
Total bytes sent: 476,000
Total bytes received: 2,032,978,448

sent 476,000 bytes  received 2,032,978,448 bytes  7,717,094.68 bytes/sec
total size is 2,052,694,727  speedup is 1.01
rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1655) [generator=3.1.1]

Els missatges del tipus opendir(…): Permission denied indiquen que l'usuari sermn a l'ordinador del BioSpec no té permís per accedir a tots els fitxers i/o carpetes. Em connecto a l'ordinador i comprovo que efectivament hi ha carpetes amb permisos restringits a les que no pot accedir l'usuari sermn.

Inicio la transferència de la carpeta /opt/Pv5.1

root@cie-50-205:/opt# rsync -Hvax --verbose --progress --stats --protocol="30" sermn@cie-55-30.uab.cat:/opt/Pv5.1 .                                       
opening connection using: ssh -l sermn cie-55-30.uab.cat rsync --server --sender -vvlHogDtprxe.iLsfx . /opt/Pv5.1  (10 args)
sermn@cie-55-30.uab.cat's password: 
receiving file list ... 
expand file_list to 4000 bytes, did move
expand file_list to 8000 bytes, did move
expand file_list to 16000 bytes, did move
expand file_list to 32000 bytes, did move
opendir(Pv5.1/prog/curdir/nmrsu/ParaVision/keys): Permission denied
opendir(Pv5.1/prog/curdir/nmrsu/ParaVision/xtip): Permission denied
opendir(Pv5.1/prog/curdir/nmrsu/ParaVision/pvDatMan): Permission denied
opendir(Pv5.1/prog/curdir/nmrsu/ParaVision/shimTool): Permission denied
opendir(Pv5.1/prog/curdir/nmrsu/keystore): Permission denied
opendir(Pv5.1/prog/curdir/mri/ParaVision/keys): Permission denied
opendir(Pv5.1/prog/curdir/mri/ParaVision/xtip): Permission denied
expand file_list to 64000 bytes, did move
opendir(Pv5.1/prog/curdir/mri/ParaVision/shimTool): Permission denied
opendir(Pv5.1/prog/curdir/mri/ParaVision/history): Permission denied
opendir(Pv5.1/prog/curdir/mri/ParaVision/pvCam): Permission denied
opendir(Pv5.1/prog/curdir/mri/ParaVision/pvDatMan): Permission denied
opendir(Pv5.1/prog/curdir/mri/keystore): Permission denied
opendir(Pv5.1/prog/curdir/montaner/ParaVision/keys): Permission denied
opendir(Pv5.1/prog/curdir/montaner/ParaVision/xtip): Permission denied
opendir(Pv5.1/prog/curdir/montaner/ParaVision/pvDatMan): Permission denied
opendir(Pv5.1/prog/curdir/montaner/keystore): Permission denied
expand file_list to 128000 bytes, did move
expand file_list to 256000 bytes, did move
[Receiver] expand file_list pointer array to 524288 bytes, did move
expand file_list to 512000 bytes, did move
[Receiver] expand file_list pointer array to 1048576 bytes, did move
80167 files to consider
delta-transmission enabled
Pv5.1/
Pv5.1/QTP/
Pv5.1/classes/
Pv5.1/classes/bin/
Pv5.1/classes/doc/
...
Pv5.1/prog/wobble/pulsprog_X
            676 100%    0.65kB/s    0:00:01 (xfr#68077, to-chk=4/80167)
Pv5.1/prog/wobble/pp_birds => Pv5.1/prog/wobble/pulsprog_X
Pv5.1/prog/xtip/xtip
      2,620,912 100%    1.54MB/s    0:00:01 (xfr#68078, to-chk=2/80167)
total: matches=0  tag_hits=0  false_alarms=0 data=9946559856

rsync[13266] (receiver) heap statistics:
  arena:        5783552   (bytes from sbrk)
  ordblks:            4   (chunks not in use)
  smblks:             0
  hblks:              4   (chunks from mmap)
  hblkhd:       1851392   (bytes from mmap)
  allmem:       7634944   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:            0
  uordblks:     5384448   (bytes used)
  fordblks:      399104   (bytes free)
  keepcost:      398768   (bytes in releasable chunk)

rsync[12324] (generator) heap statistics:
  arena:        5783552   (bytes from sbrk)
  ordblks:            2   (chunks not in use)
  smblks:             2
  hblks:              4   (chunks from mmap)
  hblkhd:       1851392   (bytes from mmap)
  allmem:       7634944   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:           64
  uordblks:     5056720   (bytes used)
  fordblks:      726832   (bytes free)
  keepcost:      726496   (bytes in releasable chunk)

Number of files: 80,167 (reg: 68,143, dir: 11,894, link: 130)
Number of regular files transferred: 68,078
Total file size: 9,971,551,075 bytes
Total transferred file size: 9,946,559,856 bytes
Literal data: 9,946,559,856 bytes
Matched data: 0 bytes
File list size: 1,708,132
Total bytes sent: 1,089,440
Total bytes received: 9,952,136,811

sent 1,089,440 bytes  received 9,952,136,811 bytes  8,236,016.76 bytes/sec
total size is 9,971,551,075  speedup is 1.00
rsync error: some files/attrs were not transferred (see previous errors) (code 23) at main.c(1655) [generator=3.1.1]

però, com en el cas del ParaVision 5.0, no es transfereixen tots els fitxers per un problema de permisos d'accés de l'usuari sermn al BioSpec.

Per resoldre el problema amb els permisos de les carpetes i/o fitxers, segueixo les instruccions descrites a Running remote rsync as root when root login is disabled, i afegeixo l'usuari remot (sermn) al fitxer /etc/sudoers al BioSpec per autoritzar-lo a executar la comanda sudo rsync i tenir accés a totes les carpetes i fitxers:

[root@cie-55-30 etc]# visudo
...
[root@cie-55-30 etc]# more sudoers 
# sudoers file.
#
# This file MUST be edited with the 'visudo' command as root.
#
# See the sudoers man page for the details on how to write a
# sudoers file.

[...]

sermn ALL= NOPASSWD:/usr/bin/rsync

i faig servir la comanda rsync amb noves opcions

# rsync -Hvax --verbose --progress --stats --protocol="30" -e \
  "ssh" --rsync-path="sudo rsync" sermn@cie-55-30.uab.cat:/opt/Pv5.1 .

Alternativament podria haver fet servir algunes de les solucions descrites a rsync all files of remote machine over SSH without root user?

root@cie-50-205:/opt# rsync -Hvax --verbose --progress --stats --protocol="30" \
-e "ssh" --rsync-path="sudo rsync" sermn@cie-55-30.uab.cat:/opt/PV5.0 .
opening connection using: ssh -l sermn cie-55-30.uab.cat "sudo rsync" --server --sender -vvlHogDtprxe.iLsfx . /opt/Pv5.0  (10 args)
receiving file list ... 
expand file_list to 4000 bytes, did move
expand file_list to 8000 bytes, did move
expand file_list to 16000 bytes, did move
expand file_list to 32000 bytes, did move
 7100 files...
expand file_list to 64000 bytes, did move
 11100 files...
 14000 files...
expand file_list to 128000 bytes, did move
 19900 files...
 21900 files...
 24800 files...
 27700 files...
 30600 files...
expand file_list to 256000 bytes, did move
[Receiver] expand file_list pointer array to 524288 bytes, did move
34230 files to consider
delta-transmission enabled
PV5.0/.hasStarted is uptodate
PV5.0/classes/doc/English/html/qtp/abort_btn.gif is uptodate
PV5.0/classes/doc/English/html/qtp/about.gif is uptodate
PV5.0/classes/doc/English/html/qtp/about.html is uptodate
PV5.0/classes/doc/English/html/qtp/about_btn.gif is uptodate
...
PV5.0/prog/pvlocal/bin/cdrecord.redhat_el3
        343,217 100%    1.13MB/s    0:00:00 (xfr#27, to-chk=2538/34230)
PV5.0/prog/pvlocal/bin/growisofs
         93,397 100%  307.10kB/s    0:00:00 (xfr#28, to-chk=2535/34230)
total: matches=0  tag_hits=0  false_alarms=0 data=958266

rsync[11915] (receiver) heap statistics:
  arena:        2326528   (bytes from sbrk)
  ordblks:            4   (chunks not in use)
  smblks:             0
  hblks:              4   (chunks from mmap)
  hblkhd:       1327104   (bytes from mmap)
  allmem:       3653632   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:            0
  uordblks:     2193328   (bytes used)
  fordblks:      133200   (bytes free)
  keepcost:      132864   (bytes in releasable chunk)

rsync[11527] (generator) heap statistics:
  arena:        2134016   (bytes from sbrk)
  ordblks:            2   (chunks not in use)
  smblks:             2
  hblks:              4   (chunks from mmap)
  hblkhd:       1327104   (bytes from mmap)
  allmem:       3461120   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:           64
  uordblks:     1865600   (bytes used)
  fordblks:      268416   (bytes free)
  keepcost:      268080   (bytes in releasable chunk)

Number of files: 34,230 (reg: 29,827, dir: 4,264, link: 139)
Number of regular files transferred: 28
Total file size: 2,052,735,064 bytes
Total transferred file size: 958,266 bytes
Literal data: 958,266 bytes
Matched data: 0 bytes
File list size: 808,190
Total bytes sent: 464
Total bytes received: 1,766,945

sent 464 bytes  received 1,766,945 bytes  52,758.48 bytes/sec
total size is 2,052,735,064  speedup is 1,161.44

[1] find ./PV5.0/ -type f | wc -l
[2] find ./PV5.0/ -type d | wc -l
[3] find ./PV5.0/ -type l | wc -l

root@cie-50-205:/opt# rsync -Hvax --verbose --progress --stats --protocol="30" -e "ssh" --rsync-path="sudo rsync" sermn@cie-55-30.uab.cat:/opt/Pv5.1 .
opening connection using: ssh -l sermn cie-55-30.uab.cat "sudo rsync" --server --sender -vvlHogDtprxe.iLsfx . /opt/Pv5.1  (10 args)
receiving file list ... 
expand file_list to 4000 bytes, did move
expand file_list to 8000 bytes, did move
expand file_list to 16000 bytes, did move
expand file_list to 32000 bytes, did move
expand file...
_list to 64000 bytes, did move
 12000 files...
 15800 files...
expand file_list to 128000 bytes, did move
 19800 files...
 23700 files...
 27500 files...
 31300 files...
expand file_list to 256000 bytes, did move
[Receiver] expand file_list pointer array to 524288 bytes, did move
 36500 files...
 40400 files...
 44200 files...
 48000 files...
 51800 files...
 55600 files...
 59500 files...
 63300 files...
expand file_list to 512000 bytes, did move
[Receiver] expand file_list pointer array to 1048576 bytes, did move
 69300 files...
 73200 files...
 77000 files...
80168 files to consider
delta-transmission enabled
Pv5.1/.checkedLibDeps is uptodate
Pv5.1/.directory is uptodate
Pv5.1/.hasStarted is uptodate
Pv5.1/classes/doc/English/html/qtp/abort_btn.gif is uptodate
...
Pv5.1/prog/service/configuration.md5
      1,714,138 100%    1.52MB/s    0:00:01 (xfr#128, to-chk=2342/80168)
Pv5.1/prog/service/configuration_5.1_Wed_Oct_31_12:49:53_2012.md5
      1,714,138 100%    7.43MB/s    0:00:00 (xfr#129, to-chk=2341/80168)
total: matches=727  tag_hits=6294  false_alarms=1 data=4737215

rsync[18966] (receiver) heap statistics:
  arena:        5783552   (bytes from sbrk)
  ordblks:            4   (chunks not in use)
  smblks:             2
  hblks:              4   (chunks from mmap)
  hblkhd:       1851392   (bytes from mmap)
  allmem:       7634944   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:          128
  uordblks:     5385904   (bytes used)
  fordblks:      397648   (bytes free)
  keepcost:      397312   (bytes in releasable chunk)

rsync[18880] (generator) heap statistics:
  arena:        5783552   (bytes from sbrk)
  ordblks:            5   (chunks not in use)
  smblks:             2
  hblks:              4   (chunks from mmap)
  hblkhd:       1851392   (bytes from mmap)
  allmem:       7634944   (bytes from sbrk + mmap)
  usmblks:            0
  fsmblks:          128
  uordblks:     5058928   (bytes used)
  fordblks:      724624   (bytes free)
  keepcost:      460384   (bytes in releasable chunk)

Number of files: 80,168 (reg: 68,141, dir: 11,897, link: 130)
Number of regular files transferred: 129
Total file size: 9,971,638,288 bytes
Total transferred file size: 5,229,582 bytes
Literal data: 4,737,215 bytes
Matched data: 492,367 bytes
File list size: 1,706,986
Total bytes sent: 11,596
Total bytes received: 6,451,016

sent 11,596 bytes  received 6,451,016 bytes  680,274.95 bytes/sec
total size is 9,971,638,288  speedup is 1,542.97

[1] find ./Pv5.1/ -type f | wc -l
[2] find ./PV5.1/ -type d | wc -l
[3] find ./PV5.1/ -type l | wc -l