Hello,
I'm trying to install an older version of SMRT analysis (version 1.4.0) on my machine because the raw SMRT Cell data that we receive from a company is in the format of bas.h5, and the newer version (2.2.0) requires 3 bax.h5, 1 bas.h5, and 1 xml metadata file.
In the installation process, which I follow to a tee, upon running the startup script, I get the following errors when I run the following command:
gives:
I have edited my setup.sh file for SEYMOUR_HOME to be /opt/smrtanalysis, and I receive this error. I have checked other people with similar issues and have confirmed that it is using the bundled Python.
Any Ideas?
Thanks a bunch!
Nick
I'm trying to install an older version of SMRT analysis (version 1.4.0) on my machine because the raw SMRT Cell data that we receive from a company is in the format of bas.h5, and the newer version (2.2.0) requires 3 bax.h5, 1 bas.h5, and 1 xml metadata file.
In the installation process, which I follow to a tee, upon running the startup script, I get the following errors when I run the following command:
Code:
nick@Nick-Bioinformatics:/opt/smrtanalysis/etc/scripts/postinstall$ ./configure_smrtanalysis.sh
Code:
ERROR:root:code for hash md5 was not found. Traceback (most recent call last): File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type md5 ERROR:root:code for hash sha1 was not found. Traceback (most recent call last): File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha1 ERROR:root:code for hash sha224 was not found. Traceback (most recent call last): File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha224 ERROR:root:code for hash sha256 was not found. Traceback (most recent call last): File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha256 ERROR:root:code for hash sha384 was not found. Traceback (most recent call last): File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha384 ERROR:root:code for hash sha512 was not found. Traceback (most recent call last): File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 139, in <module> globals()[__func_name] = __get_hash(__func_name) File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/hashlib.py", line 91, in __get_builtin_constructor raise ValueError('unsupported hash type %s' % name) ValueError: unsupported hash type sha512 Traceback (most recent call last): File "bin/conf_main.py", line 4, in <module> from bin.util.upgradeUtil import * File "/opt/smrtanalysis-1.4.0/etc/scripts/postinstall/bin/util/upgradeUtil.py", line 13, in <module> from fabric.api import * File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Fabric-1.2.2-py2.7.egg/fabric/api.py", line 9, in <module> from fabric.context_managers import cd, hide, settings, show, path, prefix, lcd File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Fabric-1.2.2-py2.7.egg/fabric/context_managers.py", line 13, in <module> from fabric.state import env, output, win32 File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Fabric-1.2.2-py2.7.egg/fabric/state.py", line 9, in <module> from fabric.network import HostConnectionCache File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Fabric-1.2.2-py2.7.egg/fabric/network.py", line 19, in <module> import paramiko as ssh File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/paramiko-1.7.7.1-py2.7.egg/paramiko/__init__.py", line 69, in <module> from transport import SecurityOptions, Transport File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/paramiko-1.7.7.1-py2.7.egg/paramiko/transport.py", line 37, in <module> from paramiko.dsskey import DSSKey File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/paramiko-1.7.7.1-py2.7.egg/paramiko/dsskey.py", line 23, in <module> from Crypto.PublicKey import DSA File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Crypto/PublicKey/DSA.py", line 33, in <module> from Crypto.PublicKey import _DSA, _slowmath, pubkey File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Crypto/PublicKey/_DSA.py", line 33, in <module> from Crypto.Hash import SHA File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Crypto/Hash/SHA.py", line 32, in <module> digest_size = new().digest_size File "/opt/smrtanalysis/redist/python2.7/lib/python2.7/site-packages/Crypto/Hash/SHA.py", line 31, in new return hashlib.sha1(data) AttributeError: 'module' object has no attribute 'sha1'
Any Ideas?
Thanks a bunch!
Nick
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