Organisms that need updated HTML download links

[patricksis]

• [ ] Acer yangbiense - This organism has no downloads
• [x] Actinidia chinensis
• [x] Betula pendula
• [x] Carica papaya - No genome or gff file
• [x] Cinnamomum micranthum
• [x] Corylus avellana
• [ ] Diospyros oleifera - This organism has no downloads
• [x] Fagus sylvatica
• [x] Hevea brasiliensis
• [x] Liriodendron chinense
• [x] Macadamia integrofolia - Only has genome file
• [x] Morus notabilis
• [x] Olea europaea
• [x] Populus deltoides
• [x] Populus tremula
• [x] Populus tremuloides
• [x] Populus trichocarpa
• [x] Punica granatum
• [x] Quercus robur
• [x] Vernicia fordii - This organism has no downloads

Note:

• "-All gene models genome" should be "Genome scaffolds"
• Use "All Gene Models Protein (fasta format), All Gene Models CDS (fasta format), etc

[patricksis]

Got an error when updating Acer yangbiense's references genome: Could not save the TripalEntity: SQLSTATE[42703]: Undefined column: 7 ERROR: column "organism_id" of relation "analysis" does not exist LINE 1: ...= NULL, sourceuri = NULL, analysis_id = '365', organism_i... ^

[patricksis]

@almasaeed2010 Do you have any idea how to correct this error?

[CaseyRichards92]

@mestato We should be linking these to treegenes if they also have this data correct?

[mestato]

Yes!

For anything already on treegenes, lets start linking and deleting files from our system.

I"m shipping off the rest of the files to them today. as soon as they are ready we can change those links too

[CaseyRichards92]

Receiving this error when trying to update Acer yangbiense to html "Could not save the TripalEntity: SQLSTATE[42703]: Undefined column: 7 ERROR: column "organism_id" of relation "analysis" does not exist LINE 1: ...= NULL, sourceuri = NULL, analysis_id = '365', organism_i... ^ Cannot save entity "

<a href="https://academic.oup.com/gigascience/article/8/7/giz085/5532406#162124649">Source</a>
<h4>Downloads</h4>
<table class="table table-valign-middle table-sm table-hover">
  <tbody>
  <tr class="no-border">
    <td class="text-muted download-td"><i class="fa fa-file-text-o"></i></td>
    <th>
Genomic scaffolds 
   <div>
    <a class="text-sm text-muted font-normal" href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/genome/Aeya.1_0.fa.gz">Genomic scaffolds</a>
   </div>
  </th>
  <td class="text-right"><a href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/genome/Aeya.1_0.fa.gz" class="btn btn-primary"><i class="fa fa-download"></i></a></td>
 </tr>
 <tr class="no-border">
  <td class="text-muted download-td"><i class="fa fa-file-text-o"></i></td>
  <th>      
All Gene Models CDS (fasta format)
   <div>
    <a class="text-sm text-muted font-normal" href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/annotation/Aeya.1_0.cds.fa.gz">All Gene Models CDS (fasta format)</a>
   </div>
  </th>
  <td class="text-right"><a href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/annotation/Aeya.1_0.cds.fa.gz" class="btn btn-primary"><i class="fa fa-download"></i></a></td>
 </tr>
  <tr class="no-border">
  <td class="text-muted download-td"><i class="fa fa-file-text-o"></i></td>
  <th>
All Gene Models Protein (fasta format)
    <div>
      <a class="text-sm text-muted font-normal" href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/annotation/Aeya.1_0.pep.fa.gz">All Gene Models Protein (fasta format)</a>
    </div>
    </th>
    <td class="text-right"><a href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/annotation/Aeya.1_0.pep.fa.gz" class="btn btn-primary"><i class="fa fa-download"></i></a></td>
  </tr>
  </tr>
    <tr class="no-border">
    <td class="text-muted download-td"><i class="fa fa-file-text-o"></i></td>
    <th>
All Gene Models GFF (Fasta format)
      <div>
        <a class="text-sm text-muted font-normal" href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/annotation/Aeya.1_0.gff.gz">All Gene Models GFF (Fasta format)</a>
      </div>
    </th>
    <td class="text-right"><a href="https://treegenesdb.org/FTP/Genomes/Aeya/v1.0/annotation/Aeya.1_0.gff.gz" class="btn btn-primary"><i class="fa fa-download"></i></a></td>
  </tr>
  </tbody>
</table>```