Eric, I would like to get the tarball of TPP. That might help. I can ask our administrator to install these dependencies. Regarding docker- I tried "docker --version", it said "command not found".
Thanks, -Kamal On Thu, Nov 15, 2018 at 11:19 PM Eric Deutsch <[email protected]> wrote: > Hi Kamal, I can post a tarball of the latest code if you’d like to > download that and try compiling it. However, there are a substantial number > of other requirements. I just launched a fresh CentOS 7.5 node and tried to > compile TPP. I found the following dependencies needed to be installed > before it would work nicely: > > > > sudo yum -y install subversion > > sudo yum -y groupinstall 'Development Tools' > > sudo yum -y install gnuplot > > sudo yum -y install gd-devel > > sudo yum -y install libzip-devel > > sudo yum -y install bzip2-devel > > sudo yum -y install libstdc++-static > > sudo yum -y install glibc-static > > sudo yum -y install perl-devel > > > > If you have someone you can ask to install those, then you should be able > to build TPP. If you cannot ask anyone to install such things for you, then > this may be difficult. > > > > Is there Docker available on your machine/cluster? That would make it > easier. > > > > Regards, > > Eric > > > > > > > > > > > > *From:* Kamal Mandal <[email protected]> > *Sent:* Thursday, November 15, 2018 9:44 PM > *To:* [email protected] > *Cc:* [email protected] > *Subject:* Re: [spctools-discuss] Linux version of TPP > > > > HI Eric, > > Thanks a lot for your quick response. Actually I tried this way but didn't > work. I am not very much expert in computation, but it looks like "svn" > command is not working in our cluster. I thought if I download the entire > package, that might help. > > Can you suggest some way out of it? Here is the specification of our > cluster - "CentOS Linux 7 (Core)" > > > > -Kamal > > > > On Thu, Nov 15, 2018 at 9:07 PM Eric Deutsch <[email protected]> > wrote: > > Hi Kamal, I’m not certain what would be best, but suppose you just install > the TPP in your own area under your username. So, based on the instructions > here: > > > http://tools.proteomecenter.org/wiki/index.php?title=TPP_5.2.0:_Installing_on_Ubuntu_18.04_LTS > > > > You could install TPP in a space off your home directory and then use it > that way on the cluster. Maybe something like this: > > Assume your home directory is /home/kmandal, you could try something like > this: > > > > cd /home/kmandal > > mkdir tpp svn data > > cd svn > > svn checkout svn:// > svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline > > echo "INSTALL_DIR = /users/kmandal/tpp" > site.mk > > echo "TPP_DATADIR = /users/kmandal/data" >> site.mk > > make all > > make install > > > > If that all works, then the TPP executables are all in > /users/kmandal/tpp/bin > > > > The possible snag is that you still need to have the equivalents of these > requirements installed on your machine to compile it: > > > > sudo apt --yes install subversion > > sudo apt --yes install build-essential > > sudo apt --yes install perl > > sudo apt --yes install zlib1g-dev > > sudo apt --yes install libghc-bzlib-dev > > sudo apt --yes install gnuplot > > sudo apt --yes install unzip > > sudo apt --yes install expat > > sudo apt --yes install libexpat1-dev > > > > Maybe your machine has all these already, or maybe not. Do you have a sys > administrator that you can ask to install those components? > > > > What version of Linux is your cluster running, do you know? > > > > Regards, > > Eric > > > > > > *From:* [email protected] < > [email protected]> *On Behalf Of *Kamal Mandal > *Sent:* Thursday, November 15, 2018 7:02 PM > *To:* spctools-discuss <[email protected]> > *Subject:* [spctools-discuss] Linux version of TPP > > > > Hello, > > Can anybody help me with the link for downloading the linux version of > TPP. > > The available recipe of installation doesn't work for me since I cannot > use "sudo" in our cluster. I can install it only in my own space. > > > > -Kamal > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To post to this group, send email to [email protected]. > Visit this group at https://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > > -- > You received this message because you are subscribed to a topic in the > Google Groups "spctools-discuss" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/spctools-discuss/GOYhdTTMOJo/unsubscribe > . > To unsubscribe from this group and all its topics, send an email to > [email protected]. > To post to this group, send email to [email protected]. > Visit this group at https://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > > > > > -- > > Kamal Mandal, M.Tech > > Research Scholar > > National Institute of Immunology, New Delhi > > Aruna Asaf Ali Marg > > New Delhi - 110067 > > *India* > > > > *Contact no. :- +91- 9560445356 * > -- Kamal Mandal, M.Tech Research Scholar National Institute of Immunology, New Delhi Aruna Asaf Ali Marg New Delhi - 110067 *India* *Contact no. :- +91- 9560445356 * -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
