Difference between revisions of "Stephen Louie Project Notebook"
From LMU BioDB 2013
(→11/14/2013: added instructions) |
(→11/14/2013: added more to entry) |
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*Conducted meeting with guilds. No meeting was conducted for Quality Assurance | *Conducted meeting with guilds. No meeting was conducted for Quality Assurance | ||
*Sat in on GenMAPP builder guild meeting for absent teammate | *Sat in on GenMAPP builder guild meeting for absent teammate | ||
| − | *Downloaded and extracted data source files | + | *Downloaded and extracted data source files with Mitchell |
**UniProt XML | **UniProt XML | ||
***Followed directions provided [[Running GenMAPP Builder|Here]] | ***Followed directions provided [[Running GenMAPP Builder|Here]] | ||
| Line 22: | Line 22: | ||
*Created new database in PostgreSQL | *Created new database in PostgreSQL | ||
**Followed directions provided [[Running GenMAPP Builder|Here]] | **Followed directions provided [[Running GenMAPP Builder|Here]] | ||
| + | *Imported data into PostgreSQL | ||
| + | **Followed directions provided [[Running GenMAPP Builder|Here]] | ||
| + | **UniProt XML took 19.17 minutes | ||
| + | **GO OBO-XML took 17.81 minutes to import and to 15.54 minutes process | ||
| + | **GOA file took less than a minute | ||
| + | *Exported Gene Database | ||
| + | **Followed directions provided [[Running GenMAPP Builder|Here]] | ||
| + | **Export took ~8 hours | ||
==External Links== | ==External Links== | ||
Revision as of 06:56, 15 November 2013
Contents |
Week 12
11/12/2013
- Gave presentation for Genome paper to class
11/14/2013
- Conducted meeting with guilds. No meeting was conducted for Quality Assurance
- Sat in on GenMAPP builder guild meeting for absent teammate
- Downloaded and extracted data source files with Mitchell
- UniProt XML
- Followed directions provided Here
- GOA
- Note:Current directions were not working. Follow these instructions for your respective species
- From Running GenMAPP Builder page, clicked on the UniProt-GOA Downloads link.
- Was given an error message. Changed url from "ftp" to "http" at beginning.
- Was entered, was taken to Index of/pub/database/GO/goa
- Clicked on "proteomes" folder
- Directed to Index of /pub/databases/GO/goa/proteomes. Downloaded 58.R_meliloti.goa
- Note: R. meliloti is an alternative name to S. Melitoti.
- GO OBO-XML
- Followed directions provided Here
- UniProt XML
- Created new database in PostgreSQL
- Followed directions provided Here
- Imported data into PostgreSQL
- Followed directions provided Here
- UniProt XML took 19.17 minutes
- GO OBO-XML took 17.81 minutes to import and to 15.54 minutes process
- GOA file took less than a minute
- Exported Gene Database
- Followed directions provided Here
- Export took ~8 hours
