<div dir="ltr"><div><div><div><div>Hi all,<br><br></div>I am trying to build a members db using a set of core and custom genome assemblies. I have set up the locator column for both the core and custom databases in the genome_db table of the master database. However, when I run the LoadMembers pipeline, the load_genomedb analysis fails to load the custom genomes:<br><br>mysql> SELECT * FROM msg;<br>+-------------+------------------------+----------------+--------+---------+-----------+---------------------+-------+--------------+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------+----------+<br>| analysis_id | logic_name             | log_message_id | job_id | role_id | worker_id | when_logged         | retry | status       | msg                                                                                                                                                                                                                                                                                                             | is_error |<br>+-------------+------------------------+----------------+--------+---------+-----------+---------------------+-------+--------------+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------+----------+<br>|           3 | copy_table_from_master |              1 |      4 |       3 |         3 | 2018-01-22 18:00:51 |     0 | WRITE_OUTPUT | Successfully copied 1646504 'ncbi_taxa_node' rows                                                                                                                                                                                                                                                               |        0 |<br>|           3 | copy_table_from_master |              2 |      5 |       4 |         4 | 2018-01-22 18:03:12 |     0 | WRITE_OUTPUT | Successfully copied 2504391 'ncbi_taxa_name' rows                                                                                                                                                                                                                                                               |        0 |<br>|           5 | load_genomedb          |              3 |     10 |       7 |         7 | 2018-01-22 18:05:17 |     0 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=2' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>|           5 | load_genomedb          |              4 |     10 |       7 |         7 | 2018-01-22 18:05:18 |     1 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=2' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>|           5 | load_genomedb          |              5 |      9 |       6 |         6 | 2018-01-22 18:05:19 |     0 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=1' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>|           5 | load_genomedb          |              6 |      9 |       6 |         6 | 2018-01-22 18:05:20 |     1 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=1' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>|           5 | load_genomedb          |              7 |      9 |       8 |         8 | 2018-01-22 18:06:08 |     2 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=1' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>|           5 | load_genomedb          |              8 |     10 |       8 |         8 | 2018-01-22 18:06:08 |     2 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=2' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>|           5 | load_genomedb          |              9 |      9 |      10 |        10 | 2018-01-22 18:08:49 |     1 | FETCH_INPUT  | Sorry, could not figure out how to make a DBConnection object out of 'Bio::EnsEMBL::Compara::GenomeMF/filename=/home/hd/hd_hd/hd_cc141/Vertebrates_project/Ensembl_compara/non_ensembl_species.json;index=1' at /beegfs/home/hd/hd_hd/hd_cc141/EnsEMBL/ensembl-hive/modules/Bio/EnsEMBL/Hive/Utils.pm line 366. |        1 |<br>+-------------+------------------------+----------------+--------+---------+-----------+---------------------+-------+--------------+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------+----------+<br>9 rows in set (0.00 sec)<br><br></div>Any suggestion would be highly appreciated.<br><br></div>Cheers,<br></div>Francesco<br></div>