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While building my code in getting error : can't locate GTK2.pm #INC (you may need to install gtk2 module)
So I tried to build perl-gtk2 source code on RHEL 8.1. I'm using perl 5.26 version. After building perl script Makefile.pl, I'm running MAKE and it's not getting build successfully. Some of the .pod files are not getting generated.
As shown by your image (and please don't post images of text - copy the actual text into your question) the error message talked about "Gtk.pm", not "GTK.pm". Attention to detail is very important for programmers :-)
There's no need to build anything. The required module is already available in the standard RHEL package repositories.
$ sudo yum install perl-Gtk2
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I trying to get set up with Variant Effect Predictor (VEP) on the command line. I'm following the setup tutorial but I'm encountering some errors around dependencies. I'm also quite new to the command line so if anyone is able to break down the solution too then I'd be very grateful. Thanks!
Tutorial: https://www.ensembl.org/info/docs/tools/vep/script/vep_tutorial.html
VEP requirements: http://www.ensembl.org/info/docs/tools/vep/script/vep_download.html#requirements
I also have Perl v5.32.1.
What I've done:
I installed dependencies (listed in the requirements page) with the following commands:
- sudo -s cpanm DBI
- sudo -s cpanm Archive::Zip
- sudo -s cpanm DBD::mysql
For DBD:mysql, I got the follwoing message:
--> Working on DBD::mysql
Fetching http://www.cpan.org/authors/id/D/DV/DVEEDEN/DBD-mysql-4.050.tar.gz ... OK
Configuring DBD-mysql-4.050 ... N/A
! Configure failed for DBD-mysql-4.050. See /root/.cpanm/work/1626111140.5937/build.log for details.
Trying it out anyway, I ran perl INSTALL.pl (from the tutorial page) and got the message below. I would like VEP to run in online mode too if possible.
`WARNING: DBD::mysql module not found. VEP can only run in offline (--offline) mode without DBD::mysql installed
http://www.ensembl.org/info/docs/tools/vep/script/vep_download.html#requirements
Hello! This installer is configured to install v104 of the Ensembl API for use by the VEP.
It will not affect any existing installations of the Ensembl API that you may have.
It will also download and install cache files from Ensembl's FTP server.
Checking for installed versions of the Ensembl API...done
Setting up directories
Destination directory ./Bio already exists.
Do you want to overwrite it (if updating VEP this is probably OK) (y/n)? y
- fetching BioPerl
- unpacking ./Bio/tmp/release-1-6-924.zip
ERROR: Unable to unpack file ./Bio/tmp/release-1-6-924.zip without Archive::Extract or tar/unzip/gzip`
You show us this error:
Configure failed for DBD-mysql-4.050. See /root/.cpanm/work/1626111140.5937/build.log for details.
So looking in there will give you more clues about what the problems are. Without that, we can only guess.
But we can make educated guesses. The DBD::mysql distribution comes with a file called DBD::mysql::INSTALL which will talk you through some of the problems you'll find while installing this module.
It's important to note that DBD::mysql is a wrapper around MySQL's client libraries. They are written in C, so you'll need a C compiler installed in order to build DBD::mysql. You'll also need the client libraries and the development versions of the client libraries (for the C header files that you'll need to compile the module). On Ubuntu, those packages are called "libmysqlclient" and "libmysqlclient-dev". If you don't have a C compiler, then you'll want to install "gcc" too.
But this is all getting a bit complicated. There's another, simpler, approach. If you're using the system version of Perl (the version that was installed as part of the operating system and probably lives in /usr/bin/perl) then I'd recommend using the pre-build Ubuntu version of the package, which you can install by running:
$ sudo apt-get install libdbd-mysql-perl
Installing that version uses the OS's own package manager, and the package manager knows which other packages are needed in order for it to work - so it will install those as well.
People will probably complain that you're better off installing the modules from CPAN as it gives you more flexibility and allows you to use more up-to-date packages than the versions from your OS repos. And they're right. But, honestly, if you're a non-Perl programmer who just wants to get an application up and running, this is by far the simplest approach.
(But, as I said above, this is all guesswork as you haven't shared the most important errors with us.)
I keep getting error messages when trying to install the Date::Manip module. Any Perl experts know what I can try?
The command I'm trying is
perl -MCPAN -e "install Date::Manip"
Perl version is 5.20 and the version of the Date::Manip it keeps trying to install is 6.45, but it comes back with "Make had some problems" and "No such file in archive". It does prompt me to manually install the file, but i have no clue on how to do that. Here's what it says...
Could not find file 'sulbeck#heather.osg.ufl.edu.2024:1399465428' in memory at C:\Strawberry\perl\lib/CPAN/Tarzip.pm line 408.
Making symbolic link 'C:\STRAWB~1\cpan\build\tmp-3576\Date-Manip6.45\lib\Date\Manip\.#Changes6.pod' to 'sulbeck#heather.osg.ufl.edu.2024:1399465428' failed at C:\Strawberry\perl\lib/CPAN/Tarzip.pm line 408.
Could not untar with Archive::Tar SBECK/Date-Manip-6.45.tar.gz
Had problems unarchiving. please build manually. Stopping: 'install' failed for 'Date:Manip
I had exactly the same problem today.
I've been able to get 6.44 installed by doing the following from within the cpan cli (you can access this by simply typing cpan in your terminal).
The developer for Date::Manip has archived previous versions of the module, you'll need to add the backpan URL into your cpan config so you can search for it.
o conf urllist push http://backpan.perl.org/
Now you should be able to install using a direct path to version 6.44
install SBECK/Date-Manip-6.44.tar.gz
I had to accept that the checksum wasn't present in the package, but after that the module seemed to install correctly.
I suspect you'll want to keep an eye on the module and this bug report so that you can upgrade once it has been fixed.
perl -MCPAN -e "install 'SBECK/Date-Manip-6.44.tar.gz'"
or wait until the distribution is fixed. '.#Changes6.pod' is an illegal filename for your tar.
I am getting a bunch of compile errors when I try to install the MySQL DBD::mysql Perl library. I am trying to install this library on OpenSuse linux (SUSE Linux Enterprise server 10 (x86_64) version 10, patch level 4)
The install fails when trying to compile dbdimp.h. There are hundreds of complile errors but I have reason to believe they all stem from the first 3:
dbdimp.h:23:49: error: mysql.h: No such file or directory
dbdimp.h:24:45: error: mysqld_error.h: No such file or directory
dbdimp.h:26:49: error: errmsg.h: No such file or directory
I believe that the reason I am getting the errors above is that I have no MySql Client installed. I do not know how to install mysql client (I believe I am supposed to get some version of libmysqlclient).
I am brand new to opensuse and vaguely familar with installing packages on Linux in general have used yum, yast, apt-get on ubuntu + centOS previously but the only package manager tools that seem to be on OpenSuse 10 are rpm and zypper. I have not managed to install the required mysql client using either of these. If anyone knows how to install MySql Client to resolve my issue I would greatly appreciate any recomendations
Thanks
You need to install MySQL or the MySQL client libraries, either through your system's package manager or by following the installation instructions from the source code.
It sounds like your question is really "How do I install MySQL on OpenSuse", which would be more appropriate for one of the other StackExchange sites.
I was able to resolve this to a point. In my original question, I stated that I had tried using YAST but that it had not worked. In fact, I did not fully explore the YAST install option but when I did, I managed to download install the required librarys by following an article I found (http://adminramble.com/install-mysql-yast/#chitika_close_button)
I was able to open the YAST GUI in the terminal window (not an X-window display) and navigate through the "software management" section wherein I was able to do a search for MySql. Amoung the search results were mysql client libraries, which I then selected and hit "Accept". The installation started and completed successully.
In order to complile the PERL DBD::mysql module, I had to create a new makefile with the ccflags specified so that the header files could be found:
perl Makefile.PL --cflags -I/usr/include/mysql
I say "to a point" at the top of this comment because I then ran into further problems compiling but my original issue posted has been partially resolved and getting this far may help someone else who is experiencing the same problem. Will update if I get a solution to the compile problem.
At first,I tried to use ppm and cpanm to install Tk module.But failed to download whth the reason which i don't konw(yet i can install image module) .So I tried another way.I downloaded the Tk-804.030 from the cpan website.And unpacked it.Then I type "perl makefile.pl" in the cmd, howerver, shit happens.There were so many errors.And i remenbered to read the README.txt, so i found the following which make me frustrated.
When you install ActivePerl, it provides patched C runtime as PerlCRT.dll
which it installs in the "system32" directory.
This needs "administrator" rights on NT.
It also provides the import library PerlCRT.lib, but this is installed
in an odd location e.g. C:\ActivePerl\lib\CORE\PerlCRT.lib
where it is not found by MakeMaker or VC++.I copied it to C:\VisualStudio\VC98\lib\PerlCRT.lib
(Your paths may vary dependinh where you installed ActivePerl and VC++.)
I could not find the PerlCRT.dll and PerlCRT.lib in my computer, i googled and found PerlCRT.dll which could be downloaded, but i counld find PerlCRT.lib to download.i don't kown how to do it, i really need some help.It couldn't be better if you can tell me the whole installing procedure. ( I'm new to Perl, and I use Win7, visual studio 2012 and MinGW as well)
See PPM Tk info page, the distro fails to build on the current versions of ActiveState Perl for Windows. You can add the 3rd party Bribes repository, Tk is available there.
This is a peculiar error that hasn't come up before. I'm using PPM in Windows to install modules for Perl. Works fine with tons of modules. But it seems like something is screwy with the Moose-2.000 package and I have no idea how to fix this.
To duplicate the error:
Install newest version of Activestate on windows machine
PPM into the cmd
search "moose"
mark Moose for install and install it
it says:
Moose marked for install
Installing package ...
Downloading Moose-2.0000 ... not found
Installing package failed
ERROR: 404 Not Found
I added virtually all the repos i could find but this seems to be coming from activestate's.
Forgive me, but I actually have no idea how to install a module manually (without the very simple GUI). I've downloaded the tar file, unzipped it and ran 'makefile.pl'. I copied the lib files to the /perl/site/lib folder.
Unfortunately, PPM expects a PPD wrapper (or something) so I can't do a command line install like "ppm install URL-of-package".
Can anyone attempt this and let me know if you have any luck? If not, please give a step by step on how to install this particular package. I'd be grateful since a bunch of other stuff (like a Twitter package) depends on it!
Thanks
UDPATE:
ok it looks like v2.000 simply doesn't exist yet for Win32. so i was able to install v1.25 in the following workaround, explained in the activestate bugtracker (see comments)
Workaround:
1) Find the latest available version for your platform here:
http://ppm4.activestate.com/idx/MOO...MY.html
Mouse over the icons in the PPMX column to see the target platform and Perl
version.
2) Copy the URL of the .ppmx file
3) Use the URL as an argument to 'ppm install'. For example, for 5.12 Win x86:
ppm install
http://ppm4.activestate.com/MSWin32-x86/5.12/1200/D/DR/DROLSKY/Moose-1.25.ppmx
I can see same problem - it looks like quirk on ActiveState side. On their package index there is still only 1.25 available. Maybe just the changes are yet to be propaged to mirrors.
Edit: I recently upgraded to Moose 2.0001, which seems to be fixed. However I got conflict with Class-MOP that comes with ActivePerl 5.12. It turned out that Class::MOP and Moose has been merged together. Solution was to remove both Class-MOP and Moose prior installation:
ppm rem Class::MOP --force
ppm rem Class::MOP --area perl --force
ppm rem Moose --area perl --force
ppm inst Moose