Queue: PublicMetaMap
Subject: Problem with Metamap installation
Status: resolved
Created: Tue Mar 19 10:50:57 2013
Resolved: Tue Mar 19 10:51:41 2013
LastUpdated: Tue Mar 19 10:51:41 2013
Subject: Problem with Metamap installation
Status: resolved
Created: Tue Mar 19 10:50:57 2013
Resolved: Tue Mar 19 10:51:41 2013
LastUpdated: Tue Mar 19 10:51:41 2013
Subject: Problem with Metamap installation Creator: 28 Created: 2013-03-19 14:50:57 Transaction: 1863 Parent: 0 MessageId: Filename: ContentType: multipart/mixed ContentEncoding: Content:
Subject: Creator: 28 Created: 2013-03-19 14:50:57 Transaction: 1863 Parent: 140 MessageId: Filename: ContentType: text/html ContentEncoding: none Content: Dear Metamap support,
I am experiencing a problem while installing Metamap on my PC running Ubuntu (12.4). I unzip and finished the installation process, and was able to launch the server successfully. But when running ./bin/metamap12, I got the following error:
... public_mm/bin/metamap12.BINARY.Linux: No such file or directory
The file "metamap12.BINARY.Linux" however does exist under the ./bin directory.
-------------------------------------------------------------
The following are detailed of what I did:
Downloaded public_mm_linux_main_2012.tar.bz2 (md5sum checked) and mv it to
/home/mars/my_install_temp/metamap
$ cd /home/mars/my_install_temp/metamap
$ bunzip2 -c public_mm_linux_main_2012.tar.bz2 | tar xvf -
...
$ cd public_mm
(edited .bashrc to setup JAVA_HOME to "/usr" and include "/home/mars/my_install_temp/metamap/public_mm" in PATH)
$ ./bin/install.sh
...
$ ./bin/skrmedpostctl start
Starting skrmedpostctl:
started.
$ ./bin/wsdserverctl start
$Starting wsdserverctl:
started.
[email redacted]:~/my_install_temp/metamap/public_mm$ loading properties file /home/mars/my_install_temp/metamap/public_mm/WSD_Server/config/disambServer.cfg
WSD Server initializing disambiguation methods.
WSD Server databases and disambiguation methods have been initialized.
... (demo hangs)
(In a separate console)
$ ./bin/metamap12
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12 /home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux -L 2012 -Z 2012AA
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12: line 113: /home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux: No such file or directory
Similarly,
$ echo "lung cancer" | ./bin/metamap12 -I
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12 /home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux -L 2012 -Z 2012AA -I
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12: line 113: /home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux: No such file or directory
Please help!
Thanks,
Gene
Subject: Problem with Metamap installation - gene hugs <[email redacted]>
- 2012-12-29 1025.eml
Creator: 28
Created: 2013-03-19 14:50:57
Transaction: 1863
Parent: 140
MessageId:
Filename: Problem with Metamap installation - gene hugs <[email redacted]> - 2012-12-29 1025.eml
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Date: Sat, 29 Dec 2012 10:25:39 -0500
Message-ID:
Subject: Problem with Metamap installation
From: gene hugs <[email redacted]>
To: <[email redacted]>
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--f46d041826aa7b5b4604d1ff64dd
Content-Type: text/plain; charset="ISO-8859-1"
Dear Metamap support,
I am experiencing a problem while installing Metamap on my PC running
Ubuntu (12.4). I unzip and finished the installation process, and was able
to launch the server successfully. But when running ./bin/metamap12, I got
the following error:
... public_mm/bin/metamap12.BINARY.Linux: No such file or directory
The file "metamap12.BINARY.Linux" however does exist under the ./bin
directory.
-------------------------------------------------------------
The following are detailed of what I did:
Downloaded public_mm_linux_main_2012.tar.bz2 (md5sum checked) and mv it to
/home/mars/my_install_temp/metamap
$ cd /home/mars/my_install_temp/metamap
*$ bunzip2 -c *public_mm_linux_main_2012.tar.bz2* | tar xvf -
...
$ cd public_mm
(edited .bashrc to setup JAVA_HOME to "/usr" and include
"/home/mars/my_install_temp/metamap/public_mm" in PATH)
$ ./bin/install.sh
...
$** ./bin/skrmedpostctl start
Starting skrmedpostctl:
started.
*
$ ./bin/wsdserverctl start
$Starting wsdserverctl:
started.
[email redacted]:~/my_install_temp/metamap/public_mm$ loading properties file
/home/mars/my_install_temp/metamap/public_mm/WSD_Server/config/disambServer.cfg
WSD Server initializing disambiguation methods.
WSD Server databases and disambiguation methods have been initialized.
... (demo hangs)
(In a separate console)
$ ./bin/metamap12
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12
/home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux -L
2012 -Z 2012AA
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12: line 113:
/home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux: No
such file or directory
Similarly,
$ echo "lung cancer" | ./bin/metamap12 -I
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12
/home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux -L
2012 -Z 2012AA -I
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12: line 113:
/home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux: No
such file or directory
Please help!
Thanks,
Gene
*
*
--f46d041826aa7b5b4604d1ff64dd
Content-Type: text/html; charset="ISO-8859-1"
Content-Transfer-Encoding: quoted-printable
Dear Metamap support,
I am experiencing a problem while installin=
g Metamap on my PC running Ubuntu (12.4). I unzip and finished the installa=
tion process, and was able to launch the server successfully. But when runn=
ing ./bin/metamap12, I got the following error:
... public_mm/bin/metamap12.BINARY.Linux: No such file or directory
=
The file "metamap12.BINARY.Linux" however does exist under th=
e ./bin directory.
-------------------------------------------------=
------------
The following are detailed of what I did:
Downloaded public_mm_linux=
_main_2012.tar.bz2 (md5sum checked) and mv it to
/home/mars/my_install_t=
emp/metamap
$ cd /home/mars/my_install_temp/metamap
$ bunzip2 -c public_mm_linux_main_2012.tar.bz2 | tar xvf -
...
$ cd public_mm
(edited .bashrc to setup JAVA_HOME to &qu=
ot;/usr" and include "/home/mars/my_install_temp/metamap/public_m=
m" in PATH)
$ ./bin/install.sh
...
$ ./bin/skrmedpostctl start
Start=
ing skrmedpostctl:
start=
ed.
$ ./bin/wsdserverctl start
$Starting wsdserverctl:
started.<=
br>[email redacted]:~/my_install_temp/metamap/public_mm$ loading properties file /=
home/mars/my_install_temp/metamap/public_mm/WSD_Server/config/disambServer.=
cfg
WSD Server initializing disambiguation methods.
WSD Server databases and=
disambiguation methods have been initialized.
... (demo hangs)
<=
br>
(In a separate console)
$ ./bin/metamap12
/home/mars/my_i=
nstall_temp/metamap/public_mm/bin/SKRrun.12 /home/mars/my_install_temp/meta=
map/public_mm/bin/metamap12.BINARY.Linux -L 2012 -Z 2012AA
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12: line 113: /home=
/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux: No such=
file or directory
Similarly,
$ echo "lung cancer"=
| ./bin/metamap12 -I
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12 /home/mars/my_in=
stall_temp/metamap/public_mm/bin/metamap12.BINARY.Linux -L 2012 -Z 2012AA -=
I
/home/mars/my_install_temp/metamap/public_mm/bin/SKRrun.12: line 113: =
/home/mars/my_install_temp/metamap/public_mm/bin/metamap12.BINARY.Linux: No=
such file or directory
Please help!
Thanks,
Gene
Subject: Creator: 28 Created: 2013-03-19 14:51:41 Transaction: 1866 Parent: 0 MessageId: [email redacted] Filename: ContentType: text/html ContentEncoding: none Content: I was wondering are you running a 64-bit system? I tested the main Linux Public MetaMap Distribution (public_mm_linux_main_2012.tar.bz2) on a Mint Linux 64 bit system (a Ubuntu derivative) and the file "public_mm/bin/metamap12.BINARY.Linux" was present.
The error you're see can occur if you are running MetaMap on a 64-bit system which does not have the 32-bit compatibility libraries present.
The executable file metamap12.BINARY.Linux is a 32-bit binary but one should be able to run it on a 64-bit system provided that you have a 32-bit version of libc-*.so in /lib (as well as a /lib64/libc-*.so). (The locations of these files may vary.) There may also be other 32-bit supporting files that may need to be installed also.
If you're running an Ubuntu or Debian system be sure that the package ia32-libs is installed. You can install it using the command (you must be root to do this):
$ sudo apt-get install ia32-libs
The APT program will install any necessary dependencies as well.
Sincerely,
Willie Rogers