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natefoo/twobit.log

Created December 14, 2020 22:44
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twobit.log
[g2main@galaxy-web-05 ~]$ grep twobit /srv/galaxy/main/log/zergling0.log
galaxy.tools.data DEBUG 2020-12-09 19:57:30,617 [p:29736,w:0,m:0] [MainThread] Loaded 19 lines from '/cvmfs/data.galaxyproject.org/byhand/location/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:30,617 [p:29736,w:0,m:0] [MainThread] Loaded tool data table 'twobit' from file '/srv/galaxy/main/config/tool_data_table_conf.xml'
galaxy.tools.data DEBUG 2020-12-09 19:57:30,713 [p:29736,w:0,m:0] [MainThread] Loaded 21 lines from '/cvmfs/data.galaxyproject.org/managed/location/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:30,713 [p:29736,w:0,m:0] [MainThread] Loading another instance of data table 'twobit' from file '/cvmfs/data.galaxyproject.org/managed/location/tool_data_table_conf.xml', attempting to merge content.
galaxy.tools.data DEBUG 2020-12-09 19:57:31,891 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/galaxy-repl/main/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/74b09c8e5f6e/all_fasta.loc' for 'all_fasta'
galaxy.tools.data DEBUG 2020-12-09 19:57:31,892 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/galaxy-repl/main/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/74b09c8e5f6e/lastz_seqs.loc' for 'lastz_seqs'
galaxy.tools.data DEBUG 2020-12-09 19:57:31,893 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/galaxy-repl/main/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/74b09c8e5f6e/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:31,893 [p:29736,w:0,m:0] [MainThread] Loading another instance of data table 'twobit' from file '/cvmfs/main.galaxyproject.org/config/shed_tool_data_table_conf.xml', attempting to merge content.
galaxy.tools.data DEBUG 2020-12-09 19:57:32,070 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/galaxy-repl/main/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/74b09c8e5f6e/alignseq.loc' for 'alignseq_seq'
galaxy.tools.data DEBUG 2020-12-09 19:57:33,694 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/cvmfs/main.galaxyproject.org/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/df883cc67fbd/all_fasta.loc' for 'all_fasta'
galaxy.tools.data DEBUG 2020-12-09 19:57:33,695 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/cvmfs/main.galaxyproject.org/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/df883cc67fbd/lastz_seqs.loc' for 'lastz_seqs'
galaxy.tools.data DEBUG 2020-12-09 19:57:33,697 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/cvmfs/main.galaxyproject.org/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/df883cc67fbd/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:33,697 [p:29736,w:0,m:0] [MainThread] Loading another instance of data table 'twobit' from file '/cvmfs/main.galaxyproject.org/config/shed_tool_data_table_conf.xml', attempting to merge content.
galaxy.tools.data DEBUG 2020-12-09 19:57:33,699 [p:29736,w:0,m:0] [MainThread] Loaded 0 lines from '/cvmfs/main.galaxyproject.org/tool_data/toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/df883cc67fbd/alignseq.loc' for 'alignseq_seq'
galaxy.tools.data DEBUG 2020-12-09 19:57:33,927 [p:29736,w:0,m:0] [MainThread] Loaded 19 lines from '/galaxy-repl/main/tool_data/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:33,927 [p:29736,w:0,m:0] [MainThread] Loading another instance of data table 'twobit' from file '/cvmfs/main.galaxyproject.org/config/shed_tool_data_table_conf.xml', attempting to merge content.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,225 [p:29736,w:0,m:0] [MainThread] Loaded 19 lines from '/galaxy-repl/main/tool_data/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:35,225 [p:29736,w:0,m:0] [MainThread] Loading another instance of data table 'twobit' from file '/cvmfs/main.galaxyproject.org/config/shed_tool_data_table_conf.xml', attempting to merge content.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,225 [p:29736,w:0,m:0] [MainThread] While attempting to merge tool data table "twobit", the other instance of the table specified that duplicate entries are not allowed, now deduplicating all previous entries.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,225 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['bosTau4', '/galaxy/data/bosTau4/bosTau4.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,225 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droPer1', '/galaxy/data/droPer1/droPer1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['apiMel2', '/galaxy/data/apiMel2/apiMel2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droAna1', '/galaxy/data/droAna1/droAna1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droAna2', '/galaxy/data/droAna2/droAna2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droAna3', '/galaxy/data/droAna3/droAna3.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droSec1', '/galaxy/data/droSec1/droSec1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droGri2', '/galaxy/data/droGri2/droGri2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droGri1', '/galaxy/data/droGri1/droGri1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droEre2', '/galaxy/data/droEre2/droEre2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droEre1', '/galaxy/data/droEre1/droEre1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,226 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droVir3', '/galaxy/data/droVir3/droVir3.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droVir2', '/galaxy/data/droVir2/droVir2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droVir1', '/galaxy/data/droVir1/droVir1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droMoj3', '/galaxy/data/droMoj3/droMoj3.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droMoj2', '/galaxy/data/droMoj2/droMoj2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droMoj1', '/galaxy/data/droMoj1/droMoj1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['xenTro2', '/galaxy/data/xenTro2/xenTro2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,227 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['hg19', '/galaxy/data/hg19/seq/hg19.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,508 [p:29736,w:0,m:0] [MainThread] Loaded 19 lines from '/galaxy-repl/main/tool_data/twobit.loc' for 'twobit'
galaxy.tools.data DEBUG 2020-12-09 19:57:35,508 [p:29736,w:0,m:0] [MainThread] Loading another instance of data table 'twobit' from file '/cvmfs/main.galaxyproject.org/config/shed_tool_data_table_conf.xml', attempting to merge content.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,508 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['bosTau4', '/galaxy/data/bosTau4/bosTau4.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,508 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droPer1', '/galaxy/data/droPer1/droPer1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,508 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['apiMel2', '/galaxy/data/apiMel2/apiMel2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droAna1', '/galaxy/data/droAna1/droAna1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droAna2', '/galaxy/data/droAna2/droAna2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droAna3', '/galaxy/data/droAna3/droAna3.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droSec1', '/galaxy/data/droSec1/droSec1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droGri2', '/galaxy/data/droGri2/droGri2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droGri1', '/galaxy/data/droGri1/droGri1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droEre2', '/galaxy/data/droEre2/droEre2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droEre1', '/galaxy/data/droEre1/droEre1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,509 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droVir3', '/galaxy/data/droVir3/droVir3.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droVir2', '/galaxy/data/droVir2/droVir2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droVir1', '/galaxy/data/droVir1/droVir1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droMoj3', '/galaxy/data/droMoj3/droMoj3.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droMoj2', '/galaxy/data/droMoj2/droMoj2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['droMoj1', '/galaxy/data/droMoj1/droMoj1.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['xenTro2', '/galaxy/data/xenTro2/xenTro2.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.tools.data DEBUG 2020-12-09 19:57:35,510 [p:29736,w:0,m:0] [MainThread] Attempted to add fields (['hg19', '/galaxy/data/hg19/seq/hg19.2bit']) to data table 'twobit', but this entry already exists and allow_duplicates is False.
galaxy.datatypes.registry DEBUG 2020-12-09 19:57:50,456 [p:29736,w:0,m:0] [MainThread] Retrieved datatype module galaxy.datatypes.binary:TwoBit from the datatype registry for extension twobit.
galaxy.tools.toolbox.base DEBUG 2020-12-09 19:58:18,554 [p:29736,w:0,m:0] [MainThread] Loaded tool id: toolshed.g2.bx.psu.edu/repos/iuc/ucsc_twobittofa/ucsc-twobittofa/357, version: 357 into tool panel....
galaxy.tools.data_manager.manager DEBUG 2020-12-09 19:58:19,609 [p:29736,w:0,m:0] [MainThread] Loaded Data Manager: toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/data_manager/twobit_builder/0.0.2
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