Hi Ray, You seem have apache install already at: /usr/sbin/httpd
Please make sure you have apxs (or apxs2 for apache2) installed as well. Cheers, Junjun > -----Original Message----- > From: [email protected] > [mailto:[email protected]] On Behalf Of Jing, Rui > Sent: Monday, November 23, 2009 4:42 PM > To: Arek Kasprzyk; [email protected] > Subject: RE: [mart-dev] my biomart database is connected, but > can't exex apx2( apache cannot installed correctly) > > Hi Arek, > > I did the installation, but some errors. > when I make intall, it installed under /usr/local/apache/ but > when I follow the 1.4.1.2 to run > > ./configure \ > > > > --enable-deflate \ > > > > --prefix=/home/software/biomart-perl/apache \ > > > > make install > > it can not be installed. please let me know. Thanks, > > Ray > > /home/software/biomart-perl/apache/source/httpd-2.2.14/ > > > > > > cd /home/biomart/apache > > > > mkdir source > > > > cd source > > > > wget http://www.apache.org/dist/httpd/httpd-2.2.14.tar.gz > > > > tar zxvf httpd-2.2.14.tar.gz > > > > cd httpd-2.2.14 > > > > ./configure \ > > > > --enable-deflate \ > > > > --prefix=/home/software/biomart-perl/apache \ > > > > make install > > > > the error messages like these: > >> make install > > configure: WARNING: you should use --build, --host, --target > > configure: WARNING: you should use --build, --host, > --target checking > > for chosen layout... Apache checking for working mkdir -p... yes > > checking build system type... Invalid configuration `make': machine > > `make' not recognized > > configure: error: /bin/sh build/config.sub make failed > > > > > ________________________________ > > From: Arek Kasprzyk [mailto:[email protected]] > Sent: Mon 11/23/2009 4:33 PM > To: Jing, Rui; [email protected] > Subject: Re: [mart-dev] my biomart database is connected, but > can't exex apx2( apache cannot installed correctly) > > > > > Hi Jing > > > > On 23/11/09 3:59 PM, "Jing, Rui" <[email protected]> wrote: > > > Hi, > > > > When I ran: perl bin/configure.pl -r > conf/martDBLocation.xml --clean > > meesage is the following: > > > > Got usable Apache in /usr/sbin/httpd, probing for version & ModPerl > > configuration Can't exec "/usr/sbin/apxs2": No such file or > directory > > at > /common/home/hge/software/biomart-perl/bin/configureBioMart.pl line > > 176. > > Hi Ray, > Please refer to section 1.4.1.1 (Apache installation for > MartView) of the quick install guide > (http://www.biomart.org/install-overview.html) > to check apxs2 availability > > > A. > > > > > Use of uninitialized value in scalar chomp at > > > /common/home/hge/software/biomart-perl/bin/configureBioMart.pl > line 177. > > Use of uninitialized value in concatenation (.) or string at > > > /common/home/hge/software/biomart-perl/bin/configureBioMart.pl > line 179. > > Libdir /common/home/hge/software/biomart-perl/lib is not in @INC, > > adding to @INC Connection parameters of [My BioMart > Database] [ OK ] > > > > I thought it maybe need to install apache, then I tried to install > > apache under /home/software/biomart-perl/apache/source/httpd-2.2.14/ > > > > > > cd /home/biomart/apache > > > > mkdir source > > > > cd source > > > > wget http://www.apache.org/dist/httpd/httpd-2.2.14.tar.gz > > > > tar zxvf httpd-2.2.14.tar.gz > > > > cd httpd-2.2.14 > > > > ./configure \ > > > > --enable-deflate \ > > > > --prefix=/home/software/biomart-perl/apache \ > > > > make install > > > > the error messages like these: > >> make install > > configure: WARNING: you should use --build, --host, --target > > configure: WARNING: you should use --build, --host, > --target checking > > for chosen layout... Apache checking for working mkdir -p... yes > > checking build system type... Invalid configuration `make': machine > > `make' not recognized > > configure: error: /bin/sh build/config.sub make failed > > > > Could you please let me know how to solve the problem? > > Thanks, > > > > Ray > > > > ________________________________ > > > > From: Jing, Rui > > Sent: Fri 11/20/2009 3:35 PM > > To: Junjun Zhang; [email protected] > > Subject: RE: > > > > > > Hi Junjun, > > > > yes, the following command line ran OK with no error messages. > > perl bin/configure.pl -r conf/martDBLocation.xml --clean > > > > But when I try to start with: /usr/local/apache/bin/httpd > -d $PWD -f > > $PWD/conf/httpd.conf > > > > it does not work. I forget the error message. Could you > please let me > > know how to start apache ? > > > > when apache is started, which link I can visit martview? > > > > Thank you so much! > > > > Ray > > > > > > ________________________________ > > > > From: Junjun Zhang [mailto:[email protected]] > > Sent: Fri 11/20/2009 2:54 PM > > To: Jing, Rui; [email protected] > > Subject: RE: [mart-dev] Having problem with web service > client access > > to biomart > > > > > > > > Hi Ray, > > > > We need a bit of clarification for the problem, please scroll down. > > > > > >> -----Original Message----- > >> From: [email protected] > >> [mailto:[email protected]] On Behalf Of Jing, Rui > >> Sent: Friday, November 20, 2009 11:34 AM > >> To: [email protected] > >> Subject: RE: [mart-dev] Having problem with web service > client access > >> to biomart > >> > >> Hello, > >> > >> I want to config biomart-perl. when I connect with martDBLocation: > >> perl bin/configure.pl -r conf/martDBLocation.xml --clean , > >> it looks ok > > > > What do you mean: it looks ok? Do you mean the above > command line ran > > OK with no error message? If so, after that, did you try > start apache, > > and check martview? > > > >> > >> I changed settgins.conf and registryURLPointer.xml. > >> v> $PWD/conf/httpd.conf > >> It does not work. > > > > Please do not use registryURLPointer, what you need is > martDBLocation > > in order to make martview work with your own data marts. > > > > Best regards, > > Junjun > > > > > > Could you please let me know how to start > >> biomart and make the > >> link working > >> http://localhost:80/biomart-perl/martview > <http://localhost/biomart-perl/martview> > > <http://localhost/biomart-perl/martview> > >> > >> the followings are my conf (settings.conf and > registryURLPointer.xml) > >> > >> 1. settings.conf > >> ################ httpd.conf settings #################### > >> [httpdSettings] apacheBinary=/usr/local/apache/bin/httpd > >> serverHost=localhost > >> port=80 > >> # to use proxying set the proxy port below (even if its > 80) and set > >> serverHost as your proxy host proxy= # if apxs or apxs2 is not in > >> default directory where httpd lives, you may set this > param to point > >> to apxs/2 apxs= location=biomart-perl ( which I installed into > >> /home/software/biomart-perl/ ) > >> > >> 2. registryURLPointer.xml > >> > >> name = "central_server" > >> host = "localhost" > >> port = "80" > >> path = "" > >> includeMarts = "msd,uniprot" > >> > >> Thanks, > >> > >> Ray > >> > >> > >> > >> The information in this e-mail is intended only for the person to > >> whom it is addressed. If you believe this e-mail was sent > to you in > >> error and the e-mail contains patient information, please > contact the > >> Partners Compliance HelpLine at > >> http://www.partners.org/complianceline . If the e-mail was sent to > >> you in error but does not contain patient information, > please contact > >> the sender and properly dispose of the e-mail. > >> > >> > > > > > >
