Dear Gildas,

Thanks for your message.

So I 've tried and it recretaed a new .venv. I've checked the ldap python and it was succeffully installed : Installing collected packages: psycopg2, Pygments, WebError, python-ldap

Successfully installed Pygments-2.0.2 WebError-0.10.3 psycopg2-2.6.1 python-ldap-2.4.27

Activating virtualenv at .venv

But the probelm is still there, and I think it is because there is this new folder auth in galaxy-dist/lib/galaxy/auth/.

And maybe it is looking from that

File "/home/galaxy/galaxy-dist/lib/galaxy/auth/providers/ldap_ad.py", line 118, in authenticate

ldap.set_option(*opt)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/ldap/functions.py", line 135, in set_option

return _ldap_function_call(None,_ldap.set_option,option,invalue)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/ldap/functions.py", line 66, in _ldap_function_call

result = func(*args,**kwargs)

ValueError: option error

Any one has this error ?

Mohamed

2017-02-24 9:47 GMT+01:00 Gildas Le Corguillé <lecorguille@sb-roscoff.fr>:

Hi Mohamed,

Have you try to remove (and backup if you want) the whole .venn folder?

Galaxy will create a new one with all its needs.

Best

Gildas

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Gildas Le Corguillé - Bioinformatician/Bioanalyste

Plateform ABiMS (Analyses and Bioinformatics for Marine Science)
http://abims.sb-roscoff.fr

Member of the Workflow4Metabolomics project

http://workflow4metabolomics.org

Station Biologique de Roscoff - UPMC/CNRS - FR2424
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tel: +33 2 98 29 23 81
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Le 24 févr. 2017 à 09:42, Mohamed Kassam <k.mamoud@gmail.com> a écrit :

Hello
i tried to install via root and maybe it works,

However now the bash run.sh it is working, however my ldap is not working I have password incorrect and I get this error in the terminal :

galaxy.auth.providers.ldap_ad ERROR 2017-02-24 10:52:24,672 LDAP authenticate: search exception

Traceback (most recent call last):

File "/home/galaxy/galaxy-dist/lib/galaxy/auth/providers/ldap_ad.py", line 118, in authenticate

ldap.set_option(*opt)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/ldap/functions.py", line 135, in set_option

return _ldap_function_call(None,_ldap.set_option,option,invalue)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/ldap/functions.py", line 66, in _ldap_function_call

result = func(*args,**kwargs)

ValueError: option error

Any idea ?

Thanks,

Mohamed

2017-02-24 9:11 GMT+01:00 Mohamed Kassam <k.mamoud@gmail.com>:

Dear all,

I have migrate my old version of Galaxy to the new release V17.01, And I am facing this error when I am running run.sh, any clue ?

Installing collected packages: python-ldap

Found existing installation: python-ldap 2.4.17

DEPRECATION: Uninstalling a distutils installed project (python-ldap) has been deprecated and will be removed in a future version. This is due to the fact that uninstalling a distutils project will only partially uninstall the project.

Can't uninstall 'python-ldap'. No files were found to uninstall.

Can't roll back python-ldap; was not uninstalled

Exception:

Traceback (most recent call last):

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/basecommand.py", line 215, in main

status = self.run(options, args)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/commands/install.py", line 342, in run

prefix=options.prefix_path,

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/req/req_set.py", line 784, in install

**kwargs

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/req/req_install.py", line 851, in install

self.move_wheel_files(self.source_dir, root=root, prefix=prefix)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/req/req_install.py", line 1064, in move_wheel_files

isolated=self.isolated,

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/wheel.py", line 345, in move_wheel_files

clobber(source, lib_dir, True)

File "/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/pip/wheel.py", line 329, in clobber

os.utime(destfile, (st.st_atime, st.st_mtime))

OSError: [Errno 1] Operation not permitted: '/home/galaxy/galaxy-dist/.venv/lib64/python2.7/site-packages/dsml.pyo'

Thanks,

Mohamed

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