Difference between revisions of "Hinxton 2015.08- Meeting minutes"
From WormBaseWiki
Jump to navigationJump to search (Created page with "= August 2015 = == August 6, 2015 == In attendance: KH, PD, MP, TD, BB === General === * Build 250 ** In progress. MP doing all 9 core species (no precedent for this). **...") |
|||
| Line 5: | Line 5: | ||
In attendance: KH, PD, MP, TD, BB | In attendance: KH, PD, MP, TD, BB | ||
| − | === | + | === Build 250 === |
| − | + | * In progress. MP doing all 9 core species (no precedent for this). | |
| − | + | * First build from github code base (no problems so far) | |
| − | + | * How long will BLAST for all 9 species take (all BLASTX and BLASTP will need to be re-done, since all of the worm proteomes have changed) | |
| − | + | * Problems | |
| − | + | ** RNAis with bad DNA_text. Cleaned and reported to Caltech | |
| − | + | ** NCBI taxonomy database at EBI changed location, config needed a patch | |
| − | |||
| − | + | === Data integration / curation === | |
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | * | + | * B. malayi |
| − | ** | + | ** WS248 Brugia submission now live at ENA |
| − | ** | + | ** Gene prediction on new assembly |
| + | *** Looking at RATT transfers from old assembly | ||
| + | *** Using HAL mapping to project genes also works quite well. | ||
| + | *** AUGUSTUS to fill in the gaps | ||
| + | ** Handover will be Monday 10th August (during Brugia conference call) | ||
| + | * C. remanei | ||
| + | ** Bad data. Submitter does not have time right now to clean. Will be deferred from this build | ||
| + | * General | ||
| + | ** Hawaain strain - will go in as T3. BLASTable. | ||
| + | ** Cleaning up T2. Getting rid of in-frame STOPs for P. pacific us | ||
| + | **Cleaning up Brief_identifcation for protein-coding and pseudogenes. | ||
| − | * ParaSite | + | === Database migration === |
| − | + | ||
| − | + | * New interface for uploading ace files. | |
| − | + | * Discussed potential strategies for schema updates | |
| − | + | ||
| − | + | === ParaSite === | |
| − | + | ||
| + | * New release out | ||
| + | * BLAST | ||
| + | ** Fixed glitches in new service | ||
| + | ** Discussed potential minor improvements to font page | ||
| + | * Analytics | ||
| + | * Redesign of the home page. Make it more WormBase compliant. | ||
** Search box confusion | ** Search box confusion | ||
Revision as of 10:53, 11 August 2015
Contents
August 2015
August 6, 2015
In attendance: KH, PD, MP, TD, BB
Build 250
- In progress. MP doing all 9 core species (no precedent for this).
- First build from github code base (no problems so far)
- How long will BLAST for all 9 species take (all BLASTX and BLASTP will need to be re-done, since all of the worm proteomes have changed)
- Problems
- RNAis with bad DNA_text. Cleaned and reported to Caltech
- NCBI taxonomy database at EBI changed location, config needed a patch
Data integration / curation
- B. malayi
- WS248 Brugia submission now live at ENA
- Gene prediction on new assembly
- Looking at RATT transfers from old assembly
- Using HAL mapping to project genes also works quite well.
- AUGUSTUS to fill in the gaps
- Handover will be Monday 10th August (during Brugia conference call)
- C. remanei
- Bad data. Submitter does not have time right now to clean. Will be deferred from this build
- General
- Hawaain strain - will go in as T3. BLASTable.
- Cleaning up T2. Getting rid of in-frame STOPs for P. pacific us
- Cleaning up Brief_identifcation for protein-coding and pseudogenes.
Database migration
- New interface for uploading ace files.
- Discussed potential strategies for schema updates
ParaSite
- New release out
- BLAST
- Fixed glitches in new service
- Discussed potential minor improvements to font page
- Analytics
- Redesign of the home page. Make it more WormBase compliant.
- Search box confusion
