Join tool failure

classic Classic list List threaded Threaded
2 messages Options
Reply | Threaded
Open this post in threaded view
|

Join tool failure

Iry Witham
Hi Team,

I have upgraded to the latest galaxy distribution on my test server.  Now I am running into issues and can't figure this one out.  I am attempting to run the join.py tool to join two datasets at specified fields.  I am getting the following error:

Traceback (most recent call last):
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/tools/filters/join.py", line 18, in <module>
    from galaxy.util.bunch import Bunch
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/__init__.py", line 95, in <module>
    import galaxy.eggs
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/eggs/__init__.py", line 5, in <module>
    import os, sys, shutil, glob, urllib, urllib2, ConfigParser, HTMLParser, zipimport, zipfile
  File "/usr/lib64/python2.6/urllib2.py", line 93, in <module>
    import hashlib
  File "/usr/lib64/python2.6/hashlib.py", line 88, in <module>
    import _hashlib
ImportError: /usr/lib64/libssl.so.10: symbol EC_KEY_get0_group, version OPENSSL_1.0.1_EC not defined in file libcrypto.so.10 with link time reference
Traceback (most recent call last):
  File "./scripts/set_metadata.py", line 29, in <module>
    from galaxy import eggs
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/__init__.py", line 95, in <module>
    import galaxy.eggs
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/eggs/__init__.py", line 5, in <module>
    import os, sys, shutil, glob, urllib, urllib2, ConfigParser, HTMLParser, zipimport, zipfile
  File "/usr/lib64/python2.6/urllib2.py", line 93, in <module>
    import hashlib
  File "/usr/lib64/python2.6/hashlib.py", line 88, in <module>
    import _hashlib
ImportError: /usr/lib64/libssl.so.10: symbol EC_KEY_get0_group, version OPENSSL_1.0.1_EC not defined in file libcrypto.so.10 with link time reference

I am at a loss on the resolution for this.

Thanks,
Iry



The information in this email, including attachments, may be confidential and is intended solely for the addressee(s). If you believe you received this email by mistake, please notify the sender by return email as soon as possible.


___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/
Reply | Threaded
Open this post in threaded view
|

Re: Join tool failure

Nate Coraor (nate@bx.psu.edu)
On Sep 4, 2014, at 2:44 PM, Iry Witham <[hidden email]> wrote:

Hi Team,

I have upgraded to the latest galaxy distribution on my test server.  Now I am running into issues and can't figure this one out.  I am attempting to run the join.py tool to join two datasets at specified fields.  I am getting the following error:

Traceback (most recent call last):
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/tools/filters/join.py", line 18, in <module>
    from galaxy.util.bunch import Bunch
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/__init__.py", line 95, in <module>
    import galaxy.eggs
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/eggs/__init__.py", line 5, in <module>
    import os, sys, shutil, glob, urllib, urllib2, ConfigParser, HTMLParser, zipimport, zipfile
  File "/usr/lib64/python2.6/urllib2.py", line 93, in <module>
    import hashlib
  File "/usr/lib64/python2.6/hashlib.py", line 88, in <module>
    import _hashlib
ImportError: /usr/lib64/libssl.so.10: symbol EC_KEY_get0_group, version OPENSSL_1.0.1_EC not defined in file libcrypto.so.10 with link time reference
Traceback (most recent call last):
  File "./scripts/set_metadata.py", line 29, in <module>
    from galaxy import eggs
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/__init__.py", line 95, in <module>
    import galaxy.eggs
  File "/hpcdata/galaxy-test/galaxy-setup/galaxy-dist/lib/galaxy/eggs/__init__.py", line 5, in <module>
    import os, sys, shutil, glob, urllib, urllib2, ConfigParser, HTMLParser, zipimport, zipfile
  File "/usr/lib64/python2.6/urllib2.py", line 93, in <module>
    import hashlib
  File "/usr/lib64/python2.6/hashlib.py", line 88, in <module>
    import _hashlib
ImportError: /usr/lib64/libssl.so.10: symbol EC_KEY_get0_group, version OPENSSL_1.0.1_EC not defined in file libcrypto.so.10 with link time reference

I am at a loss on the resolution for this.

Thanks,
Iry

Hi Iry,

It looks like your libssl and libcrypto versions are out of sync. This shouldn't happen as both are provided by the OpenSSL packages for your OS (RHEL-based 6.x?), but I see that others have encountered similar problems:


You might want to double check that your OpenSSL packages have not been replaced by versions from another source other than the official RHEL/CentOS core repositories.

--nate




The information in this email, including attachments, may be confidential and is intended solely for the addressee(s). If you believe you received this email by mistake, please notify the sender by return email as soon as possible.
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
 http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
 http://galaxyproject.org/search/mailinglists/


___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/