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<p>I would suggest setting the first release to the ensembl code
version that you are using.<br>
</p>
<br>
<div class="moz-cite-prefix">On 15/01/2018 16:22, Francesco Lamanna
wrote:<br>
</div>
<blockquote type="cite"
cite="mid:CAM_GrBHhnbiwQ-XMnJ0Y9d=hRhqOd294xbKJbn4XqV-Cp335Ew@mail.gmail.com">
<div dir="ltr">
<div>
<div>Hi Wasiu,<br>
<br>
</div>
this is the output of the species_set_header table:<br>
<br>
mysql> SELECT * FROM species_set_header;<br>
+----------------+-------------------------------+------+---------------+--------------+<br>
| species_set_id | name | size |
first_release | last_release |<br>
+----------------+-------------------------------+------+---------------+--------------+<br>
| 1 | H.sap-G.gal | 2
| NULL | NULL |<br>
| 2 | H.sap-B.flo | 2
| NULL | NULL |<br>
| 3 | H.sap-P.mar | 2
| NULL | NULL |<br>
| 4 | <a href="http://H.sap-C.mil"
moz-do-not-send="true">H.sap-C.mil</a>
| 2 | NULL | NULL |<br>
| 5 | G.gal-B.flo | 2
| NULL | NULL |<br>
| 6 | G.gal-P.mar | 2
| NULL | NULL |<br>
| 7 | <a href="http://G.gal-C.mil"
moz-do-not-send="true">G.gal-C.mil</a>
| 2 | NULL | NULL |<br>
| 8 | B.flo-P.mar | 2
| NULL | NULL |<br>
| 9 | <a href="http://B.flo-C.mil"
moz-do-not-send="true">B.flo-C.mil</a>
| 2 | NULL | NULL |<br>
| 10 | <a href="http://P.mar-C.mil"
moz-do-not-send="true">P.mar-C.mil</a>
| 2 | NULL | NULL |<br>
| 11 | H.sap | 1
| NULL | NULL |<br>
| 12 | G.gal | 1
| NULL | NULL |<br>
| 13 | B.flo | 1
| NULL | NULL |<br>
| 14 | P.mar | 1
| NULL | NULL |<br>
| 15 | C.mil | 1
| NULL | NULL |<br>
| 16 | <a
href="http://H.sap-G.gal-B.flo-P.mar-C.mil"
moz-do-not-send="true">H.sap-G.gal-B.flo-P.mar-C.mil</a>
| 5 | NULL | NULL |<br>
+----------------+-------------------------------+------+---------------+--------------+<br>
16 rows in set (0.05 sec)<br>
<br>
</div>
It looks ok<br>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">2018-01-15 17:19 GMT+01:00 Wasiu Akanni
<span dir="ltr"><<a href="mailto:waakanni@ebi.ac.uk"
target="_blank" moz-do-not-send="true">waakanni@ebi.ac.uk</a>></span>:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<div text="#000000" bgcolor="#FFFFFF">
<p>Hi Francesco,</p>
<p>Have you checked the species_set_header table?<br>
</p>
<div>
<div class="h5"> <br>
<div class="m_-2801295335211067424moz-cite-prefix">On
15/01/2018 14:39, Francesco Lamanna wrote:<br>
</div>
<blockquote type="cite">
<div dir="ltr">
<div>
<div>
<div>
<div>
<div>
<div>Hi Matthieu,<br>
<br>
</div>
thank you for your suggestion, it fixed
the problem.<br>
<br>
</div>
However, I still get the following error:<br>
<br>
mysql> SELECT * FROM msg;<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>--------------------+---------<wbr>-+<br>
| analysis_id |
logic_name |
log_message_id | job_id | role_id |
worker_id | when_logged | retry |
status |
msg <wbr>
| is_error |<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>--------------------+---------<wbr>-+<br>
| 9 |
copy_ncbi_table
| 1 | 5 | 3
| 3 | 2018-01-15 14:49:29 | 0
| WRITE_OUTPUT | Successfully copied
1646504 'ncbi_taxa_node' rows
| 0 |<br>
| 9 |
copy_ncbi_table
| 2 | 6 | 4
| 4 | 2018-01-15 14:50:36 | 0
| WRITE_OUTPUT | Successfully copied
2504391 'ncbi_taxa_name' rows
| 0 |<br>
| 10 |
populate_method_links_from_db
| 3 | 7 | 6
| 6 | 2018-01-15 14:52:06 | 0
| WRITE_OUTPUT | Successfully copied 19
'method_link' rows
| 0 |<br>
| 16 |
create_mlss_ss
| 4 | 10 | 9
| 9 | 2018-01-15 14:55:10 | 0
| WRITE_OUTPUT | The species-set could
not be found in the master database
| 1 |<br>
| 16 |
create_mlss_ss
| 5 | 10 | 10
| 10 | 2018-01-15 14:56:11 | 1
| WRITE_OUTPUT | The species-set could
not be found in the master database
| 1 |<br>
| 16 |
create_mlss_ss
| 6 | 10 | 11
| 11 | 2018-01-15 14:57:12 | 2
| WRITE_OUTPUT | The species-set could
not be found in the master database
| 1 |<br>
| 16 |
create_mlss_ss
| 7 | 10 | 12
| 12 | 2018-01-15 14:58:21 | 3
| WRITE_OUTPUT | The species-set could
not be found in the master database
| 1 |<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>--------------------+---------<wbr>-+<br>
7 rows in set (0.01 sec)<br>
<br>
</div>
But my species_set in the master_db is not
empty:<br>
<br>
mysql> SELECT * FROM species_set;<br>
+----------------+------------<wbr>--+<br>
| species_set_id | genome_db_id |<br>
+----------------+------------<wbr>--+<br>
| 1 | 1 |<br>
| 1 | 2 |<br>
| 2 | 1 |<br>
| 2 | 3 |<br>
| 3 | 1 |<br>
| 3 | 4 |<br>
| 4 | 1 |<br>
| 4 | 5 |<br>
| 5 | 2 |<br>
| 5 | 3 |<br>
| 6 | 2 |<br>
| 6 | 4 |<br>
| 7 | 2 |<br>
| 7 | 5 |<br>
| 8 | 3 |<br>
| 8 | 4 |<br>
| 9 | 3 |<br>
| 9 | 5 |<br>
| 10 | 4 |<br>
| 10 | 5 |<br>
| 11 | 1 |<br>
| 12 | 2 |<br>
| 13 | 3 |<br>
| 14 | 4 |<br>
| 15 | 5 |<br>
| 16 | 1 |<br>
| 16 | 2 |<br>
| 16 | 3 |<br>
| 16 | 4 |<br>
| 16 | 5 |<br>
+----------------+------------<wbr>--+<br>
30 rows in set (0.00 sec)<br>
<br>
</div>
I am quite puzzled by this error.<br>
<br>
</div>
Cheers,<br>
</div>
Francesco.<br>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">2018-01-12 17:48
GMT+01:00 Matthieu Muffato <span dir="ltr"><<a
href="mailto:muffato@ebi.ac.uk"
target="_blank" moz-do-not-send="true">muffato@ebi.ac.uk</a>></span>:<br>
<blockquote class="gmail_quote" style="margin:0
0 0 .8ex;border-left:1px #ccc
solid;padding-left:1ex">Hi Francesco<br>
<br>
Homoeologues are only used when running on
plant genomes (which have polyploid genomes),
but the pipeline configuration is shared and
expects this method_link to be present<br>
<br>
This how it looks in the Ensembl Plants
database. You can insert this row in your
database and it should work<br>
<br>
<a
href="http://ensro@mysql-eg-publicsql.ebi.ac.uk:4157/ensembl_compara_plants_38_91"
rel="noreferrer" target="_blank"
moz-do-not-send="true">ensro@mysql-eg-publicsql.ebi.a<wbr>c.uk:4157/ensembl_compara_plan<wbr>ts_38_91</a>
[Fri Jan 12 16:46:32 2018] > SELECT * FROM
method_link WHERE method_link_id = 206;<br>
+----------------+------------<wbr>----------+-------------------<wbr>+<br>
| method_link_id | type |
class |<br>
+----------------+------------<wbr>----------+-------------------<wbr>+<br>
| 206 | ENSEMBL_HOMOEOLOGUES |
Homology.homology |<br>
+----------------+------------<wbr>----------+-------------------<wbr>+<br>
<br>
Regards,<br>
Matthieu<span><br>
<br>
On 12/01/18 14:01, Francesco Lamanna wrote:<br>
</span>
<blockquote class="gmail_quote"
style="margin:0 0 0 .8ex;border-left:1px
#ccc solid;padding-left:1ex"><span> Hi
Mateus,<br>
<br>
I could solve this problem by commenting
out the line: "die "The master dabase must
be defined with a collection" if
$self->o('master_db') and not
$self->o('collection');"<br>
<br>
in LoadMembers_conf.pm. The member_db is
now correctly set up.<br>
<br>
However, when I run the Protein trees
pipeline I get the following error message<br>
<br>
mysql> SELECT * FROM msg;<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>-----------------+----------+<br>
| analysis_id |
logic_name |
log_message_id | job_id | role_id |
worker_id | when_logged | retry |
status | msg
| is_error |<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>-----------------+----------+<br>
| 9 |
copy_ncbi_table
| 1 | 5 | 3
| 3 | 2018-01-12 14:21:39 | 0
| WRITE_OUTPUT | Successfully copied
1646504 'ncbi_taxa_node' rows
| 0 |<br>
| 9 |
copy_ncbi_table
| 2 | 6 | 4
| 4 | 2018-01-12 14:25:27 | 0
| WRITE_OUTPUT | Successfully copied
2504391 'ncbi_taxa_name' rows
| 0 |<br>
| 10 |
populate_method_links_from_db
| 3 | 7 | 6
| 6 | 2018-01-12 14:26:54 | 0
| WRITE_OUTPUT | Successfully copied 18
'method_link' rows
| 0 |<br>
| 16 |
create_mlss_ss
| 4 | 10 | 9
| 9 | 2018-01-12 14:29:56 | 0
| FETCH_INPUT | Cannot find the
method_link 'ENSEMBL_HOMOEOLOGUES' at
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Pre<wbr>pareSpeciesSetsMLSS.pm
line 70. | 1 |<br>
| 16 |
create_mlss_ss
| 5 | 10 | 10
| 10 | 2018-01-12 14:30:57 | 1
| FETCH_INPUT | Cannot find the
method_link 'ENSEMBL_HOMOEOLOGUES' at
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Pre<wbr>pareSpeciesSetsMLSS.pm
line 70. | 1 |<br>
| 16 |
create_mlss_ss
| 6 | 10 | 11
| 11 | 2018-01-12 14:31:58 | 2
| FETCH_INPUT | Cannot find the
method_link 'ENSEMBL_HOMOEOLOGUES' at
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Pre<wbr>pareSpeciesSetsMLSS.pm
line 70. | 1 |<br>
| 16 |
create_mlss_ss
| 7 | 10 | 12
| 12 | 2018-01-12 14:33:00 | 3
| FETCH_INPUT | Cannot find the
method_link 'ENSEMBL_HOMOEOLOGUES' at
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Pre<wbr>pareSpeciesSetsMLSS.pm
line 70. | 1 |<br>
| 16 |
create_mlss_ss
| 8 | 10 | 13
| 13 | 2018-01-12 14:38:36 | 1
| FETCH_INPUT | Cannot find the
method_link 'ENSEMBL_HOMOEOLOGUES' at
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Pre<wbr>pareSpeciesSetsMLSS.pm
line 70. | 1 |<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>-----------------+----------+<br>
8 rows in set (0.01 sec)<br>
<br>
I wasn't aware about this method_link.<br>
<br>
Do you know how can I fix this?<br>
<br>
Thanks,<br>
Francesco.<br>
<br>
</span> 2018-01-11 13:28 GMT+01:00 Francesco
Lamanna <<a
href="mailto:francesco.lamanna@gmail.com"
target="_blank" moz-do-not-send="true">francesco.lamanna@gmail.com</a>
<mailto:<a
href="mailto:francesco.lamanna@gmail.com"
target="_blank" moz-do-not-send="true">francesco.lamanna@gmai<wbr>l.com</a>>>:<span><br>
<br>
Hi Mateus,<br>
<br>
if I try to initialize the
LoadMemebers pipeline without<br>
“--collection ensembl”, I get the
following error:<br>
<br>
The following options are missing:<br>
{'collection'}<br>
<br>
I also tried to set 'collection' =>
undef, in the conf file, but I<br>
get another error:<br>
<br>
The master dabase must be defined with
a collection at<br>
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/PipeConfig/Loa<wbr>dMembers_conf.pm<br>
line 190.<br>
<br>
Cheers,<br>
Francesco<br>
<br>
2018-01-11 12:01 GMT+01:00 Mateus
Patricio <<a
href="mailto:mateus@ebi.ac.uk"
target="_blank" moz-do-not-send="true">mateus@ebi.ac.uk</a><br>
</span> <mailto:<a
href="mailto:mateus@ebi.ac.uk"
target="_blank" moz-do-not-send="true">mateus@ebi.ac.uk</a>>>:<span><br>
<br>
Hi Francesco,<br>
<br>
In your case the solution should
be starting the LoadMembers<br>
without the option “--collection
ensembl”.<br>
<br>
If you start the pipeline without
it, it should use all the<br>
current species in your master
database.<br>
<br>
In Ensembl we have different
collections that are used for<br>
different purposes, and the
default one is “ensembl”.<br>
<br>
Please let me know if this works.<br>
<br>
Cheers,<br>
<br>
Mateus.<br>
<br>
<br>
</span>
<blockquote class="gmail_quote"
style="margin:0 0 0 .8ex;border-left:1px
#ccc solid;padding-left:1ex"><span>
On 11 Jan 2018, at 10:13, Francesco
Lamanna<br>
<<a
href="mailto:francesco.lamanna@gmail.com"
target="_blank" moz-do-not-send="true">francesco.lamanna@gmail.com</a><br>
</span>
<div>
<div class="m_-2801295335211067424h5">
<mailto:<a
href="mailto:francesco.lamanna@gmail.com"
target="_blank"
moz-do-not-send="true">francesco.lamanna@gmai<wbr>l.com</a>>>
wrote:<br>
<br>
Hi Mateus,<br>
<br>
many thanks for your answer.<br>
<br>
I am trying to launch the
LoadMembers pipeline in order to<br>
make a member_db, but I get
the following error:<br>
<br>
mysql> SELECT * from msg;<br>
+-------------+---------------<wbr>---------+----------------+---<wbr>-----+---------+-----------+--<wbr>-------------------+-------+--<wbr>------------+-----------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>-+----------+<br>
| analysis_id |
logic_name |
log_message_id |<br>
job_id | role_id | worker_id |
when_logged | retry |<br>
status | msg
| is_error |<br>
+-------------+---------------<wbr>---------+----------------+---<wbr>-----+---------+-----------+--<wbr>-------------------+-------+--<wbr>------------+-----------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>-+----------+<br>
| 3 |
copy_table_from_master |
1 | 4 | 3 |
3 | 2018-01-11 11:04:02 | 0 |<br>
WRITE_OUTPUT | Successfully
copied 1646504 'ncbi_taxa_node'<br>
rows | 0 |<br>
| 3 |
copy_table_from_master |
2 | 5 | 4 |
4 | 2018-01-11 11:05:46 | 0 |<br>
WRITE_OUTPUT | Successfully
copied 2504391 'ncbi_taxa_name'<br>
rows | 0 |<br>
| 4 |
load_genomedb_factory |
3 | 3 | 5 |
5 | 2018-01-11 11:07:06 | 0 |<br>
FETCH_INPUT | Could not fetch
collection ss with name=ensembl<br>
at<br>
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Gen<wbr>omeDBFactory.pm<br>
line 106. | 1 |<br>
| 4 |
load_genomedb_factory |
4 | 3 | 6 |
6 | 2018-01-11 11:08:00 | 1 |<br>
FETCH_INPUT | Could not fetch
collection ss with name=ensembl<br>
at<br>
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Gen<wbr>omeDBFactory.pm<br>
line 106. | 1 |<br>
| 4 |
load_genomedb_factory |
5 | 3 | 7 |
7 | 2018-01-11 11:08:25 | 2 |<br>
FETCH_INPUT | Could not fetch
collection ss with name=ensembl<br>
at<br>
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Gen<wbr>omeDBFactory.pm<br>
line 106. | 1 |<br>
| 4 |
load_genomedb_factory |
6 | 3 | 8 |
8 | 2018-01-11 11:09:25 | 3 |<br>
FETCH_INPUT | Could not fetch
collection ss with name=ensembl<br>
at<br>
/home/hd/hd_hd/hd_cc141/EnsEMB<wbr>L/ensembl-compara/modules/Bio/<wbr>EnsEMBL/Compara/RunnableDB/Gen<wbr>omeDBFactory.pm<br>
line 106. | 1 |<br>
+-------------+---------------<wbr>---------+----------------+---<wbr>-----+---------+-----------+--<wbr>-------------------+-------+--<wbr>------------+-----------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>------------------------------<wbr>-+----------+<br>
6<br>
<br>
Cheers,<br>
Francesco.<br>
<br>
2018-01-10 17:31 GMT+01:00
Mateus Patricio <<a
href="mailto:mateus@ebi.ac.uk"
target="_blank"
moz-do-not-send="true">mateus@ebi.ac.uk</a><br>
</div>
</div>
<mailto:<a
href="mailto:mateus@ebi.ac.uk"
target="_blank" moz-do-not-send="true">mateus@ebi.ac.uk</a>>>:<span><br>
<br>
Hi Francesco<br>
<br>
The protein tree pipeline
reuses the genes and sequence<br>
members from the 'reuse_db'
parameter, which in this case<br>
should point to a members
database.<br>
<br>
This members database can be
created by running the<br>
LoadMembers pipeline.<br>
<br>
You can initiate the
pipeline with the following command
line:<br>
<br>
</span> <a
href="http://init_pipeline.pl"
rel="noreferrer" target="_blank"
moz-do-not-send="true">init_pipeline.pl</a>
<<a href="http://init_pipeline.pl/"
rel="noreferrer" target="_blank"
moz-do-not-send="true">http://init_pipeline.pl/</a>><span><br>
Bio::EnsEMBL::Compara::PipeCon<wbr>fig::EBI::Ensembl::LoadMembers<wbr>_conf<br>
--collection ensembl<br>
<br>
Then you should point the
parameter reuse_db to this<br>
database on your Protein
Tree config file.<br>
<br>
'reuse_db' =>
'mysql://ensro@host:port/datab<wbr>ase',<br>
<br>
Please do let me know if you
have further questions.<br>
<br>
Cheers,<br>
<br>
Mateus.<br>
<br>
<br>
</span>
<blockquote class="gmail_quote"
style="margin:0 0 0 .8ex;border-left:1px
#ccc solid;padding-left:1ex"><span>
On 10 Jan 2018, at 16:06,
Francesco Lamanna<br>
<<a
href="mailto:francesco.lamanna@gmail.com"
target="_blank"
moz-do-not-send="true">francesco.lamanna@gmail.com</a><br>
</span>
<div>
<div class="m_-2801295335211067424h5">
<mailto:<a
href="mailto:francesco.lamanna@gmail.com"
target="_blank"
moz-do-not-send="true">francesco.lamanna@gmai<wbr>l.com</a>>>
wrote:<br>
<br>
Hi all,<br>
<br>
when I try to run the
protein tree pipeline (v91) using<br>
the core Human and
Chicken genomes I get the following<br>
error message:<br>
<br>
mysql> SELECT * from
msg;<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>------------------------------<wbr>--------------+----------+<br>
| analysis_id |
logic_name |<br>
log_message_id | job_id
| role_id | worker_id |<br>
when_logged |
retry | status | msg<br>
|
is_error |<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>------------------------------<wbr>--------------+----------+<br>
| 9 |
copy_ncbi_table
| 1 | 5
| 3 | 4 |<br>
2018-01-10 16:40:13
| 0 | WRITE_OUTPUT |
Successfully<br>
copied 1646504
'ncbi_taxa_node' rows
| 0 |<br>
| 9 |
copy_ncbi_table
| 2 | 6
| 4 | 3 |<br>
2018-01-10 16:42:04
| 0 | WRITE_OUTPUT |
Successfully<br>
copied 2504391
'ncbi_taxa_name' rows
| 0 |<br>
| 10 |
populate_method_links_from_db<br>
| 3 |
7 | 6 | 6 |<br>
2018-01-10 16:43:44
| 0 | WRITE_OUTPUT |
Successfully<br>
copied 18 'method_link'
rows | 0 |<br>
| 25 |
genome_member_copy
| 4 | 13
| 11 | 11 |<br>
2018-01-10 16:47:49
| 0 | FETCH_INPUT | ParamError:<br>
value for
param_required('reuse_db') is
required and has<br>
to be defined | 1
|<br>
| 25 |
genome_member_copy
| 5 | 14
| 12 | 12 |<br>
2018-01-10 16:47:49
| 0 | FETCH_INPUT | ParamError:<br>
value for
param_required('reuse_db') is
required and has<br>
to be defined | 1
|<br>
+-------------+---------------<wbr>----------------+-------------<wbr>---+--------+---------+-------<wbr>----+---------------------+---<wbr>----+--------------+----------<wbr>------------------------------<wbr>------------------------------<wbr>--------------+----------+<br>
<br>
I have no clue about
what to put in the 'reuse_db'<br>
parameter (nor could I
find any information in the<br>
compara docs).<br>
<br>
Can anyone please help
me to solve this issue?<br>
<br>
Thanks,<br>
Francesco.<br>
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<br>
<pre>______________________________<wbr>_________________
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</pre>
</blockquote>
<br>
</div>
</div>
<span class="HOEnZb"><font color="#888888">
<div class="m_-2801295335211067424moz-signature">-- <br>
<b><big>Wasiu Ajenifuja Akanni</big></b><br>
Developer<br>
<br>
Compara group<br>
EMBL-EBI<br>
Phone: <a href="tel:+44%201223%20494237"
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<pre wrap="">_______________________________________________
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</pre>
</blockquote>
<br>
<div class="moz-signature">-- <br>
<b><big>Wasiu Ajenifuja Akanni</big></b><br>
Developer<br>
<br>
Compara group<br>
EMBL-EBI<br>
Phone: + 44 (0) 1223 494 237<br>
Room A3145, West building | Wellcome Trust Genome Campus | Hinxton
| Cambridge | CB10 1SD | UK</div>
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