Hello everyone,
when trying to install GEOquery, a bioconductor package for R, appears 12 warnings, so the install has not been completed. (I'm using a Raspbian OS)
Warning messages:
1: In system2(cmd0, args, env = env, stdout = outfile, stderr = outfile) :
system call failed: Cannot allocate memory
2: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ... :
installation of package 'BiocGenerics' had non-zero exit status
3: In system2(cmd0, args, env = env, stdout = outfile, stderr = outfile) :
system call failed: Cannot allocate memory
4: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ... :
installation of package 'bitops' had non-zero exit status
5: In system2(cmd0, args, env = env, stdout = outfile, stderr = outfile) :
system call failed: Cannot allocate memory
6: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ... :
installation of package 'XML' had non-zero exit status
7: In system2(cmd0, args, env = env, stdout = outfile, stderr = outfile) :
system call failed: Cannot allocate memory
8: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ... :
installation of package 'Biobase' had non-zero exit status
9: In system2(cmd0, args, env = env, stdout = outfile, stderr = outfile) :
system call failed: Cannot allocate memory
10: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ... :
installation of package 'RCurl' had non-zero exit status
11: In system2(cmd0, args, env = env, stdout = outfile, stderr = outfile) :
system call failed: Cannot allocate memory
12: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ... :
installation of package 'GEOquery' had non-zero exit status
How could i solve it?
Thanks!
Solved: I've followed the steps of this post : https://www.raspberrypi.org/forums/viewtopic.php?t=111375&p=767299 And if you have problems with dphys-swapfile, try to install it: http://manpages.ubuntu.com/manpages/trusty/man8/dphys-swapfile.8.html
sudo apt-get install dphys-swapfile
and then restart the previous steps.
See if this helps? You may still be better off using another lightweight linux distro instead of one meant for use on Pi on this laptop.
Thank very much for sharing that post, it has been really useful!!
I'll consider another distribution of linux!
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Are you trying to do this on a raspberry Pi? I doubt there is enough RAM on the Pi to do useful bioinformatics (or install packages).
No, I'm using an old laptop with this OS, probably it's not the best OS to do bioinformatics. And the RAM(1gb) is enough to try to do basic things.