SyMap database error
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6.9 years ago
ab.tsubaki ▴ 50

Hi guys

Anyone out there with some experience using SyMap and MySQL?

I am working on Linux, Symap installed successfully and MySQL as well. MySQL is running successfully:

$ sudo /etc/init.d/mysql status
 * /usr/bin/mysqladmin  Ver 8.42 Distrib 5.5.46, for debian-linux-gnu on x86_64
Copyright (c) 2000, 2015, Oracle and/or its affiliates. All rights reserved.

Oracle is a registered trademark of Oracle Corporation and/or its
affiliates. Other names may be trademarks of their respective
owners.

Server version        5.5.46-0ubuntu0.14.04.2
Protocol version    10
Connection        Localhost via UNIX socket
UNIX socket        /var/run/mysqld/mysqld.sock
Uptime:            10 min 19 sec

Threads: 1  Questions: 729766  Slow queries: 0  Opens: 87  Flush tables: 1  Open tables: 80  Queries per second avg: 1178.943

With Symap I have made the alignments of my two genomes and now all that remains is to draw up the synteny. However, the software runs for about 10 minutes after which I get the following error:

A database error occurred, please see the Troubleshooting Guide at:
http://www.agcol.arizona.edu/software/symap/v4.2/TroubleShoot.html#database_error

I know this should have something to do with MySQL, but it's running just fine?

Is there anywhere else I should be looking to solve this problem?

Thanks in advance!

Symap MySQL • 1.6k views
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