<div dir="ltr"><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">Hi Ensembl devs!</div><div><br></div><div><span style="font-family:arial,sans-serif;font-size:12.727272033691406px">I've got some troubles with Ensembl Genomes BLAST (for fungi, protists, ...)</span><br>
</div><div><span style="font-family:arial,sans-serif;font-size:12.727272033691406px">In the BLAST page the comboboxes for the </span><i style="font-family:arial,sans-serif;font-size:12.727272033691406px">dna database</i><span style="font-family:arial,sans-serif;font-size:12.727272033691406px"> and </span><i style="font-family:arial,sans-serif;font-size:12.727272033691406px">protein database </i><span style="font-family:arial,sans-serif;font-size:12.727272033691406px">selection are empty, probably s</span><span style="font-family:arial,sans-serif;font-size:12.727272033691406px">omething is misconfigured. Below the content of the MULTI.ini file:</span><span style="font-family:arial,sans-serif;font-size:12.727272033691406px"><br>
</span></div><div><span style="font-family:arial,sans-serif;font-size:12.727272033691406px"><br></span></div><div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1"> [BLAST_DATASOURCES]</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">; Registers blast datasources. Key values are used as labels</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">; Keys should be registered against methods in species.ini files</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">DEFAULT = LATESTGP</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">CDNA_ALL = cDNAs</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">CDNA_ABINITIO = Ab-initio cDNAs (Genscan/SNAP)</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">PEP_ALL = Peptides</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">PEP_ABINITIO = Ab-initio Peptides (Genscan/SNAP)</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">RNA_NC = Ensembl Non-coding RNA genes</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">LATESTGP = Genomic sequence</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">LATESTGP_MASKED = Genomic sequence (masked)</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1"><br></font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1"><br></font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">[ENSEMBL_BLAST_METHODS]</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">BLASTN = [blast dna dna ncbiblastn] ; alternatives: ncbiblastn, ensembl_wublastn, sge_wublastn</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">BLASTX = [blast dna peptide ncbiblastx] ; alternatives: ncbiblastx, ensembl_wublastx, sge_wublastx</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">BLASTP = [blast peptide peptide ncbiblastp] ; alternatives: ncbiblastp, ensembl_wublastp, sge_wublastp</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">TBLASTN = [blast peptide dna ncbitblastn] ; alternatives: ncbitblastn, ensembl_wutblastn, sge_wutblastn</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">TBLASTX = [blast dna dna ncbitblastx] ; alternatives: ncbitblastx, ensembl_wutblastx, sge_wutblastx</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">BLAT = [blat dna dna blat_gfclient]</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<br></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">[databases]</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">DATABASE_BLAST = ensembl_blast</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">[DATABASE_BLAST]</font></div>
<div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">HOST = localhost </font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">PORT = 3306</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px"><font face="courier new, monospace" size="1">USER = ***********</font></div><div style="font-family:arial,sans-serif;font-size:12.727272033691406px">
<font face="courier new, monospace" size="1">PASS = ***********</font></div></div><div><font face="courier new, monospace" size="1"><br></font></div><div style><div><font face="arial, helvetica, sans-serif"><br></font></div>
<div><font face="arial, helvetica, sans-serif">Could you explain a little how should I set these fields?</font></div><div><font face="arial, helvetica, sans-serif">The Ensembl documentation seems to me a bit confusing when talks about Blast configuration.</font></div>
<div><br></div></div><div style><font face="arial, helvetica, sans-serif">Thank you and best regards,</font></div><div><span style="font-family:arial,sans-serif;font-size:12.727272033691406px"><br></span></div><div><span style="font-family:arial,sans-serif;font-size:12.727272033691406px"><br>
</span></div><div><font style="color:rgb(102,102,102)"><span style="font-family:tahoma,sans-serif">Rafa Hernández de Diego </span></font><br><div><font color="#999999" style="font-family:arial,sans-serif;font-size:12.727272033691406px"><br class="">
SLU-Global Bioinformatics Center<br></font><span style="font-family:arial,sans-serif;font-size:12.727272033691406px;color:rgb(153,153,153)">Swedish University for Agricultural Sciences (SLU)</span><font color="#999999" style="font-family:arial,sans-serif;font-size:12.727272033691406px"><br>
Gerda Nilssons väg 2, <br>Box 7023, 750 07 Uppsala, Sweden.</font><br></div></div>
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