Difference between revisions of "Processing OBR Resources"
Jump to navigation
Jump to search
Line 41: | Line 41: | ||
*Person responsible: Kuladip Yadav(Optra),Sanjay Jadhav(Optra). | *Person responsible: Kuladip Yadav(Optra),Sanjay Jadhav(Optra). | ||
*Notes: Fixed issue of authentication, fixed other xml related issues. | *Notes: Fixed issue of authentication, fixed other xml related issues. | ||
− | *Status: | + | *Status: |
− | + | Changes done as per suggestions : | |
− | + | 1. Decrease request delay from 1000 ms to 800ms. | |
− | + | 2. Implement log4j logger mechanism. | |
− | *Last processed: 3/ | + | |
+ | *Last processed: 3/20/2009. | ||
2. Resource: Geo- GSE | 2. Resource: Geo- GSE | ||
*Person responsible: Kuladip Yadav(Optra), Sanjay Jadhav(Optra). | *Person responsible: Kuladip Yadav(Optra), Sanjay Jadhav(Optra). | ||
*Notes:Built a new resource access tool to get data from GEO- GSE database(as of now a separate tool not integrated with GDS). | *Notes:Built a new resource access tool to get data from GEO- GSE database(as of now a separate tool not integrated with GDS). | ||
− | *Status: Changes done as per | + | *Status: |
− | 1. | + | Changes done as per suggestions : |
− | + | ||
− | + | 1. Implement log4j logger mechanism. | |
− | |||
− | |||
− | |||
− | |||
− | *Last processed: 3/ | + | *Last processed: 3/20/2009. |
3. Resource: Pubmed | 3. Resource: Pubmed | ||
*Person responsible: Kuladip Yadav(Optra), Sanjay Jadhav(Optra). | *Person responsible: Kuladip Yadav(Optra), Sanjay Jadhav(Optra). | ||
− | *Notes:Built a new resource access tool from existing | + | *Notes:Built a new resource access tool from existing PubMedAccessTool to populate data from eutils and pubmed xml files . |
− | *Status: | + | *Status: |
− | + | Changes done as per suggestions : | |
− | 1. | + | |
− | 2. | + | 1. Make changes to Pub Med structure element as per GEO RAT. |
− | + | 2. Implement log4j logger mechanism. | |
− | |||
− | |||
− | *Last processed: 3/ | + | *Last processed: 3/20/2009. |
=Writing a new ResourceAccessTools= | =Writing a new ResourceAccessTools= |
Revision as of 06:09, 20 March 2009
This page is for keeping track of what resources we process and what is done with each ResourceAccessTool. There are three main activities.
Reprocessing: Simple re-run of an existing ResourceAccessTool
1. Resource: CDD
- Person responsible: Adrien
- Status: annotations to process
- Last processed: 3/4/2009
2. Resource: OMIM
- Person responsible: Adrien
- Status: annotations to process
- Last processed: 3/4/2009
3. Resource: PharmGKB
- Person responsible: Adrien
- Status: annotations to process
- Last processed: 3/3/2009
4. Resource: Reactome
- Person responsible: Adrien
- Status: annotations to process
- Last processed: 3/3/2009
5. Resource: ResearchCrossroads
- Person responsible: Adrien
- Status: annotations to process
- Last processed: 3/4/2009
6. Resource: UniProt
- Person responsible: Adrien
- Status: annotations to process
- Last processed: 3/3/2009
Reprocessing: Modification of an existing ResourceAccessTool
Examples include GEO, ClinicalTrials, Pubmed.
1. Resource: Clinicaltrials.gov
- Person responsible: Kuladip Yadav(Optra),Sanjay Jadhav(Optra).
- Notes: Fixed issue of authentication, fixed other xml related issues.
- Status:
Changes done as per suggestions : 1. Decrease request delay from 1000 ms to 800ms. 2. Implement log4j logger mechanism.
- Last processed: 3/20/2009.
2. Resource: Geo- GSE
- Person responsible: Kuladip Yadav(Optra), Sanjay Jadhav(Optra).
- Notes:Built a new resource access tool to get data from GEO- GSE database(as of now a separate tool not integrated with GDS).
- Status:
Changes done as per suggestions :
1. Implement log4j logger mechanism.
- Last processed: 3/20/2009.
3. Resource: Pubmed
- Person responsible: Kuladip Yadav(Optra), Sanjay Jadhav(Optra).
- Notes:Built a new resource access tool from existing PubMedAccessTool to populate data from eutils and pubmed xml files .
- Status:
Changes done as per suggestions :
1. Make changes to Pub Med structure element as per GEO RAT. 2. Implement log4j logger mechanism.
- Last processed: 3/20/2009.
Writing a new ResourceAccessTools
Examples include CaNanoLab.
Others in queue
- PathwayCommons
- ChemSpider
- Stanford Microarray Database
- Human Gene Mutation Database