[ensembl-dev] skip lock tables for ensembl-compara

[Francesco Lamanna]

Hello,

I am trying to apply the ProteinTrees pipeline to a set of Ensembl and
non-Ensembl genomes.

When running the pipeline without a master database (via beekeeper.pl) I
get the following error:

ensembl_compara_90 ncbi_taxa_node  | sed "s/ENGINE=MyISAM/ENGINE=InnoDB/"
|  mysql -h127.0.0.1 -P3306 -uroot -p$EHIVE_TMP_PASSWORD_0
hd_cc141_test_protein_trees_no_master_90' resulted in an error code=2
stderr is: mysql: [Warning] Using a password on the command line interface
can be insecure.
mysqldump: Got error: 1044: Access denied for user 'anonymous'@'%' to
database 'ensembl_compara_90' when doing LOCK TABLES


Is there a way to pass --skip-lock-tables to the pipeline (e.g. in the conf
file) in order to be able to dump the database?

Thanks,
Francesco.
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