Question: how I can install these modules?
3
gravatar for Angel
2.9 years ago by
Angel3.5k
Angel3.5k wrote:

hi,

long time I am trying to install this module but always the same error

cpan Math::CDF Spreadsheet::WriteExcel Getopt::Long GD::Graph::bars

Result: FAIL

Failed 5/8 test programs. 0/109 subtests failed.

Makefile:933: recipe for target 'test_dynamic' failed

make: * [test_dynamic] Error 2

RUZ/GDGraph-1.53.tar.gz

/usr/bin/make test -- NOT OK

//hint// to see the cpan-testers results for installing this module, try:

reports RUZ/GDGraph-1.53.tar.gz

what should I do please?

software error • 1.4k views
ADD COMMENTlink modified 2.9 years ago by 5heikki8.5k • written 2.9 years ago by Angel3.5k
1
gravatar for 5heikki
2.9 years ago by
5heikki8.5k
Finland
5heikki8.5k wrote:

What distro? On CentOS 7 I could just yum search GDGraph and sudo yum install perl-GDGraph.noarch

Also, what does reports RUZ/GDGraph-1.53.tar.gz say?

ADD COMMENTlink written 2.9 years ago by 5heikki8.5k
2

thank you

telling

izadi@lbox200 izadi]$ yum search GDGraph

Yum command has been deprecated, redirecting to '/usr/bin/dnf search GDGraph'.

See 'man dnf' and 'man yum2dnf' for more information.

To transfer transaction metadata from yum to DNF, run:

'dnf install python-dnf-plugins-extras-migrate && dnf-2 migrate'

MPIKG Fedora 24 - x86_64 - RPM Fusion - free - 39 MB/s | 320 kB 00:00

MPIKG Fedora 24 - x86_64 - RPM Fusion - nonfree 12 MB/s | 64 kB 00:00

MPIKG Fedora 24 - x86_64 - RPM Fusion - free 40 MB/s | 326 kB 00:00

MPIKG Fedora 24 - x86_64 - base 88 MB/s | 47 MB 00:00

MPIKG Fedora 24 - x86_64 - RPM Fusion - nonfree 26 MB/s | 110 kB 00:00

MPIKG Fedora 24 - x86_64 - MPI 6.3 MB/s | 20 kB 00:00

MPIKG Fedora 24 - x86_64 - updates 87 MB/s | 16 MB 00:00

Last metadata expiration check: 0:00:03 ago on Wed Oct 5 12:30:02 2016.

============================= N/S Matched: GDGraph ============================= perl-GDGraph.noarch : Graph generation package for Perl

perl-GDGraph3d.noarch : 3D graph generation package for Perl

[izadi@lbox200 izadi]$ sudo yum install perl-GDGraph.noarch

[sudo] password for izadi:

8323Sorry, try again. [sudo] password for izadi: 341f Sorry, try again. [sudo] password for izadi: sudo: 3 incorrect password attempts [izadi@lbox200 izadi]$ dnf install python-dnf-plugins-extras-migrate && dnf-2 migrate

Error: This command has to be run under the root user.

[izadi@lbox200 izadi]$

[izadi@lbox200 izadi]$ reports RUZ/GDGraph-1.53.tar.gz

reports: Command not found.

ADD REPLYlink written 2.9 years ago by Angel3.5k
3

@Angel: You don't have admin privileges on this server (if I recollect discussion from another thread) so you would not be able to do sudo.

You really need to ask your system admin to install the software for you to avoid all these issues you are facing.

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by genomax71k
2

I would also recommend to think & type instead of just typing. Your system is telling you that your package manager is dnf, not yum and yet you continue with yum. I think it's pretty likely that your problems with installing the mcpan (?) way relate to you not having the right to write to some location..

ADD REPLYlink written 2.9 years ago by 5heikki8.5k
1

thank you,

today I emailed him

he tried to install mirdeep2 but problem is the same :(

ADD REPLYlink written 2.9 years ago by Angel3.5k
1

If your sys admin is unable to install (not all are scientific types and don't want to dig through piles of documentation/dependencies to chase things down) then you may as well give up (and find a local machine where you will have root privileges).

Buying him a nice cup of coffee may work. Try it.

ADD REPLYlink written 2.9 years ago by genomax71k
1

thank you

actually I am in Iran and working via remote access to MPI Linux, I applied for a PhD position in Germany, professor after Skype meeting asked me to identify DE miRNA from 2 replicates of her data and if I performed well she would accept me as her student... but after a month all tools and software likely decided to prevent me to get my ambition

:( :( :(

ADD REPLYlink written 2.9 years ago by Angel3.5k

That is unfortunate.

So the Professor has given you access to MPI Linux (I assume this is a cluster at her institution) to do this? Have you kept her updated on your efforts to just get to the starting line (have necessary software installed) so you could start the analysis? Doing DE analysis from just 2 replicates carries its own hazard but I am sure your Professor is aware of that.

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by genomax71k
1

Angel clearly has write-access to her home directory so there's nothing preventing her from setting up her own perl. It's a matter of patience and willingness to read through instructions. That's something every PhD student needs..

ADD REPLYlink written 2.9 years ago by 5heikki8.5k
1

thank you

I was in max Planck institute as a visitor and until 2017 have access to my Linux there. professor is from another university and just want to see if I can handle NGS data. the PhD position is not like a job (I mean no salary or like that) and I only want to carry on my studying as a PhD even with my own fund. I graduated in agricultural science and since my joining to biostars I am trying to learn data analysis. this field is really difficult but I like that. anyway I hope not to lose this position because after months applying this professor answered me.

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by Angel3.5k
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