How to launch an activated .xzm not shown in the panel ?

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How to launch an activated .xzm not shown in the panel ?

Postby Seq_Res » 20 Feb 2017, 18:25

Hi,

I made several modules using USM; they were activated successfully but all with error messages saying "Failed to ... panel".

I tried to RUN ... but could not. Please tell a way to get around the problem. thanks !
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Re: How to launch an activated .xzm not shown in the panel ?

Postby beny » 20 Feb 2017, 19:35

hi, via console you have all the software installed view, type esc in console and choose the software you need.
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Re: How to launch an activated .xzm not shown in the panel ?

Postby Bogomips » 20 Feb 2017, 22:20

It helps if the name of the app is known. Then one can try running it thru: Run(alt+F2): <app name>
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Re: How to launch an activated .xzm not shown in the panel ?

Postby Seq_Res » 22 Feb 2017, 17:00

hi, Bogomips, thanks for your reply. I tried but it does not work. I made two modules with USM from the database slackonly : primer3 and perlprimer,
for primer3, I could not find how to launch it, and Run command could not launch it either; perlprimer is listed in the panel, but nothing happens when
click it. I can find some traces in the filesystem, but dont know the entrances of these applications. please tell a way to get around. thanks again.
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Re: How to launch an activated .xzm not shown in the panel ?

Postby Bogomips » 22 Feb 2017, 22:25

Code: Select all
root@porteus:/home/guest# usm -s primer3

primer3-2.3.7-x86_64-1_slonly.txz was found in slackonly [not installed]
Packages found:   1

Use:   usm -i <package>  for more info
Use:   usm -g <package>  to download

root@porteus:/home/guest# usm -i primer3

Package:  primer3-2.3.7-x86_64-1_slonly.txz  (164 K) [not installed]
primer3: primer3 (Design PCR primers)
primer3:
primer3: Primer3 is a widely used program for designing PCR primers (PCR =
primer3: "Polymerase Chain Reaction"). PCR is an essential and
primer3: ubiquitous tool in genetics and molecular biology. Primer3 can also
primer3: design hybridization probes and sequencing primers.
primer3:
primer3: Home: http://primer3.sourceforge.net/
primer3: References: /usr/doc/primer3-2.3.7/References
primer3:
primer3:

root@porteus:/home/guest# usm -g primer3

 The following items were found.
 Choose an number to confirm.
 ctrl+c to quit

1) primer3-2.3.6-x86_64-1_slack.txz
#? 1

Processing:   primer3-2.3.6-x86_64-1_slack.txz
Ignored libraries:

Libraries required:  3
Libraries found in system: 3
Libraries to resolve: 0


awk: cmd. line:1: (FILENAME=- FNR=1) fatal: attempt to access field -1
grep: /etc/usm/mirrors-.txt: No such file or directory
grep: /home/guest/p10/Por/var64/usm//PACKAGES.TXT: No such file or directory
grep: /home/guest/p10/Por/var64/usm//PACKAGES.TXT: No such file or directory

 The following packages are required.
primer3-2.3.6-x86_64-1_slack.txz [] [not installed]

Total size: 0 KB

 Press [r] to remove packages, [q] to quit, or enter to start downloading.

root@porteus:/home/guest# usm -s perlprimer

perlprimer-1.1.21-noarch-2_slonly.txz was found in slackonly [not installed]
Packages found:   1

Use:   usm -i <package>  for more info
Use:   usm -g <package>  to download

root@porteus:/home/guest# usm -i perlprimer

Package:  perlprimer-1.1.21-noarch-2_slonly.txz  (332 K) [not installed]
perlprimer: perlprimer (Design primers for PCR and sequencing)
perlprimer:
perlprimer: PerlPrimer is a free, open-source GUI application written in Perl
perlprimer: that designs primers for standard PCR, bisulphite PCR, real-time PCR
perlprimer: (QPCR) and sequencing. It aims to automate and simplify the process
perlprimer: of primer design.
perlprimer:
perlprimer: Home: http://perlprimer.sourceforge.net/
perlprimer: References: /usr/doc/perlprimer-1.1.21/References
perlprimer:
perlprimer:

root@porteus:/home/guest# usm -g perlprimer

 The following items were found.
 Choose an number to confirm.
 ctrl+c to quit

1) perlprimer-1.1.21-noarch-4_slack.txz
#? 1

Processing:   perlprimer-1.1.21-noarch-4_slack.txz
awk: cmd. line:1: (FILENAME=- FNR=1) fatal: attempt to access field -1
grep: /etc/usm/mirrors-.txt: No such file or directory
grep: /home/guest/p10/Por/var64/usm//PACKAGES.TXT: No such file or directory
grep: /home/guest/p10/Por/var64/usm//PACKAGES.TXT: No such file or directory

 The following packages are required.
perlprimer-1.1.21-noarch-4_slack.txz [] [not installed]

Total size: 0 KB

 Press [r] to remove packages, [q] to quit, or enter to start downloading.


Sorry, cannot be of assistance, as cannot make these modules at the moment.
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Re: How to launch an activated .xzm not shown in the panel ?

Postby ncmprhnsbl » 23 Feb 2017, 00:26

looks like missing deps:
for perlprimer:
http://packages.slackonly.com/pub/packa ... slonly.dep
primer3 doesn't show a deps file, but does need perl-tk at least... i notice from here:
http://packages.slackonly.com/pub/packa ... slonly.lst
that primer3 has no .desktop file, which is why it doesnt appear in the menu..
and its executables are:
Code: Select all
usr/bin/oligotm
usr/bin/ntthal
usr/bin/primer3_core

possibly, primer3_core is the gui, which could run via the Alt-F2 run dialog, or in a terminal..
but first, the missing deps must be got: (root terminal)
Code: Select all
usm -d /var/log/packages/primer3-2.3.7-x86_64-1_slonly
and
usm -d /var/log/packages/perlprimer-1.1.21-noarch-4_slonly

and hopefully this works..
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Re: How to launch an activated .xzm not shown in the panel ?

Postby Seq_Res » 25 Feb 2017, 17:56

Thank you all very much. I found one of the application was embedded in EMBOSS, which works fine.
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