curl -L http://cpanmin.us | perl - --sudo App::cpanminus
The above is installing the "zero configuration CPAN modules installer" called cpanm
. (Can take several minutes to install - don't break the process)
and after - simply:
cpanm Foo
cpanm Module::One
cpanm Another::Module
If Conda is installed
➜ parallelLastz git:(master) ✗ conda create -n myLocalPerl perl perl-app-cpanminus
Solving environment: done
## Package Plan ##
environment location: /home/urbe/anaconda3/envs/myLocalPerl
added / updated specs:
- perl
- perl-app-cpanminus
The following packages will be downloaded:
package | build
---------------------------|-----------------
perl-threaded-5.22.0 | 10 11.2 MB bioconda
perl-app-cpanminus-1.7039 | 2 220 KB bioconda
------------------------------------------------------------
Total: 11.4 MB
The following NEW packages will be INSTALLED:
libgcc: 7.2.0-h69d50b8_2
libgcc-ng: 7.2.0-hdf63c60_3
libstdcxx-ng: 7.2.0-hdf63c60_3
perl: 5.26.2-h470a237_0 conda-forge
perl-app-cpanminus: 1.7039-2 bioconda
perl-threaded: 5.22.0-10 bioconda
Proceed ([y]/n)? Y
Downloading and Extracting Packages
perl-threaded-5.22.0 | 11.2 MB | ############################################### | 100%
perl-app-cpanminus-1 | 220 KB | ############################################### | 100%
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use:
# > source activate myLocalPerl
#
# To deactivate an active environment, use:
# > source deactivate
#
➜ parallelLastz git:(master) ✗ source activate myLocalPerl
(myLocalPerl) ➜ parallelLastz git:(master) ✗ cpanm Parallel::ForkManager
--> Working on Parallel::ForkManager
Fetching http://www.cpan.org/authors/id/Y/YA/YANICK/Parallel-ForkManager-1.19.tar.gz ... OK
Configuring Parallel-ForkManager-1.19 ... OK
==> Found dependencies: Test::Warn
--> Working on Test::Warn
Fetching http://www.cpan.org/authors/id/B/BI/BIGJ/Test-Warn-0.36.tar.gz ... OK
Configuring Test-Warn-0.36 ... OK
==> Found dependencies: Sub::Uplevel
--> Working on Sub::Uplevel
Fetching http://www.cpan.org/authors/id/D/DA/DAGOLDEN/Sub-Uplevel-0.2800.tar.gz ... OK
Configuring Sub-Uplevel-0.2800 ... OK
Building and testing Sub-Uplevel-0.2800 ... OK
Successfully installed Sub-Uplevel-0.2800
Building and testing Test-Warn-0.36 ... OK
Successfully installed Test-Warn-0.36
Building and testing Parallel-ForkManager-1.19 ... OK
Successfully installed Parallel-ForkManager-1.19
3 distributions installed
(myLocalPerl) ➜ parallelLastz git:(master) ✗ perl parallelLastz.pl
Can't locate Bio/SeqIO.pm in @INC (you may need to install the Bio::SeqIO module) (@INC contains: /home/urbe/perl5 /home/urbe/anaconda3/envs/myLocalPerl/lib/site_perl/5.26.2/x86_64-linux-thread-multi /home/urbe/anaconda3/envs/myLocalPerl/lib/site_perl/5.26.2 /home/urbe/anaconda3/envs/myLocalPerl/lib/5.26.2/x86_64-linux-thread-multi /home/urbe/anaconda3/envs/myLocalPerl/lib/5.26.2 .) at parallelLastz.pl line 10.
BEGIN failed--compilation aborted at parallelLastz.pl line 10.
(myLocalPerl) ➜ parallelLastz git:(master) ✗ cpanm Bio::SeqIO
--> Working on Bio::SeqIO
Fetching http://www.cpan.org/authors/id/C/CJ/CJFIELDS/BioPerl-1.007002.tar.gz ... OK
==> Found dependencies: Module::Build
--> Working on Module::Build
Fetching http://www.cpan.org/authors/id/L/LE/LEONT/Module-Build-0.4224.tar.gz ... OK
Configuring Module-Build-0.4224 ... OK
Building Module-Build-0.4224 ... OK
Successfully installed Module-Build-0.4224
Configuring BioPerl-1.007002 ... OK
==> Found dependencies: Data::Stag, URI::Escape, IO::String, Test::Most
--> Working on Data::Stag
Fetching http://www.cpan.org/authors/id/C/CM/CMUNGALL/Data-Stag-0.14.tar.gz ... OK
Configuring Data-Stag-0.14 ... OK
==> Found dependencies: IO::String
--> Working on IO::String
Fetching http://www.cpan.org/authors/id/G/GA/GAAS/IO-String-1.08.tar.gz ... OK
Configuring IO-String-1.08 ... OK
Building and testing IO-String-1.08 ... OK
Successfully installed IO-String-1.08
Building and testing Data-Stag-0.14 ... OK
Successfully installed Data-Stag-0.14
--> Working on URI::Escape
Fetching http://www.cpan.org/authors/id/E/ET/ETHER/URI-1.74.tar.gz ... OK
Configuring URI-1.74 ... OK
==> Found dependencies: Test::Needs
--> Working on Test::Needs
Fetching http://www.cpan.org/authors/id/H/HA/HAARG/Test-Needs-0.002005.tar.gz ... OK
Configuring Test-Needs-0.002005 ... OK
Building and testing Test-Needs-0.002005 ... OK
Successfully installed Test-Needs-0.002005
Building and testing URI-1.74 ... OK
Successfully installed URI-1.74
--> Working on Test::Most
Fetching http://www.cpan.org/authors/id/O/OV/OVID/Test-Most-0.35.tar.gz ... OK
Configuring Test-Most-0.35 ... OK
==> Found dependencies: Test::Deep, Exception::Class, Test::Exception, Test::Differences
--> Working on Test::Deep
Fetching http://www.cpan.org/authors/id/R/RJ/RJBS/Test-Deep-1.128.tar.gz ... OK
Configuring Test-Deep-1.128 ... OK
Building and testing Test-Deep-1.128 ... OK
Successfully installed Test-Deep-1.128
--> Working on Exception::Class
Fetching http://www.cpan.org/authors/id/D/DR/DROLSKY/Exception-Class-1.44.tar.gz ... OK
Configuring Exception-Class-1.44 ... OK
==> Found dependencies: Devel::StackTrace, Class::Data::Inheritable
--> Working on Devel::StackTrace
Fetching http://www.cpan.org/authors/id/D/DR/DROLSKY/Devel-StackTrace-2.03.tar.gz ... OK
Configuring Devel-StackTrace-2.03 ... OK
Building and testing Devel-StackTrace-2.03 ... OK
Successfully installed Devel-StackTrace-2.03
--> Working on Class::Data::Inheritable
Fetching http://www.cpan.org/authors/id/T/TM/TMTM/Class-Data-Inheritable-0.08.tar.gz ... OK
Configuring Class-Data-Inheritable-0.08 ... OK
Building and testing Class-Data-Inheritable-0.08 ... OK
Successfully installed Class-Data-Inheritable-0.08
Building and testing Exception-Class-1.44 ... OK
Successfully installed Exception-Class-1.44
--> Working on Test::Exception
Fetching http://www.cpan.org/authors/id/E/EX/EXODIST/Test-Exception-0.43.tar.gz ... OK
Configuring Test-Exception-0.43 ... OK
Building and testing Test-Exception-0.43 ... OK
Successfully installed Test-Exception-0.43
--> Working on Test::Differences
Fetching http://www.cpan.org/authors/id/D/DC/DCANTRELL/Test-Differences-0.64.tar.gz ... OK
Configuring Test-Differences-0.64 ... OK
==> Found dependencies: Capture::Tiny, Text::Diff
--> Working on Capture::Tiny
Fetching http://www.cpan.org/authors/id/D/DA/DAGOLDEN/Capture-Tiny-0.48.tar.gz ... OK
Configuring Capture-Tiny-0.48 ... OK
Building and testing Capture-Tiny-0.48 ... OK
Successfully installed Capture-Tiny-0.48
--> Working on Text::Diff
Fetching http://www.cpan.org/authors/id/N/NE/NEILB/Text-Diff-1.45.tar.gz ... OK
Configuring Text-Diff-1.45 ... OK
==> Found dependencies: Algorithm::Diff
--> Working on Algorithm::Diff
Fetching http://www.cpan.org/authors/id/T/TY/TYEMQ/Algorithm-Diff-1.1903.tar.gz ... OK
Configuring Algorithm-Diff-1.1903 ... OK
Building and testing Algorithm-Diff-1.1903 ... OK
Successfully installed Algorithm-Diff-1.1903
Building and testing Text-Diff-1.45 ... OK
Successfully installed Text-Diff-1.45
Building and testing Test-Differences-0.64 ... OK
Successfully installed Test-Differences-0.64
Building and testing Test-Most-0.35 ... OK
Successfully installed Test-Most-0.35
Building and testing BioPerl-1.007002 ... OK
Successfully installed BioPerl-1.007002
16 distributions installed