Difference between revisions of "Troque Week 12"

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m (→‎Things to note: Added another bulletpoint)
m (Finished creating Gene Database Testing Report)
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* Taxonomy ID: 623
 
* Taxonomy ID: 623
 
* UP000001006
 
* UP000001006
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* Database name in PostGreSQL: Shigella flexneri 20151911
 
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* Version of GenMAPP Builder: ''' gmbuilder-3.0.0-build-5 '''
 
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* UniProt Link: [http://www.uniprot.org/uniprot/?query=proteome:UP000001006 Click here].
 
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* GO-OBO: [http://archive.geneontology.org/latest-termdb/go_daily-termdb.obo-xml.gz Click here to download].
 
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* GOA: [http://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/ Click here and use CTRL+F to find "103.S_flexneri_301.goa"]
 
 
* File management system: Wiki
 
* File management system: Wiki
  
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== Importing into PostGreSQL ==
+
== Export Information ==
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UniProt XML:
+
Version of GenMAPP Builder:
−
* Elapsed time: 4.48 minutes
+
* ''' gmbuilder-3.0.0-build-5 '''
  
−
GO-OBO XML:
+
Computer on which export was run:  
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* Elapsed time: 7.00 minutes
+
* ''' Front of the room, 3rd computer from the right. '''
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* Note: Additional processing window appeared and I clicked on it:
+
−
** 4.99 minutes
+
  
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GOA:
+
Postgres Database name:  
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* Elapsed time: 0.06 minutes
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* ''''Shigella flexneri 20151911''''
  
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== Exporting to GenMAPP ==
+
UniProt XML filename (give filename and upload and link to compressed file):
−
* Elapsed time: (TBD) Started on 4:06 PM - Ended at 5:38:46 PM
+
* UniProt XML version (The version information can be found at [http://uniprot.org/news the UniProt News Page]): '''UniProt release 2015_11'''
 +
* UniProt XML download link: '''[http://www.uniprot.org/uniprot/?query=proteome:UP000001006 Click here]'''
 +
* Time taken to import: '''4.48 minutes'''
 +
** Note:
 +
 
 +
GO OBO-XML filename (give filename and upload and link to compressed file):
 +
* GO OBO-XML version (The version information can be found in the file properties after the file downloaded from the [http://beta.geneontology.org/page/download-ontology GO Download page] has been unzipped): '''Version created on 11/19/2015 (at 2:24 AM)'''
 +
* GO OBO-XML download link: '''[http://archive.geneontology.org/latest-termdb/go_daily-termdb.obo-xml.gz Click here to download].'''
 +
* Time taken to import: '''7.00 minutes'''
 +
* Time taken to process: '''4.99 minutes'''
 +
** Note:
 +
 
 +
GOA filename (give filename and upload and link to compressed file):
 +
* GOA version (News on [http://www.ebi.ac.uk/GOA/ this page] records past releases; current information can be found in the Last modified field on the [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/ FTP site]): '''Version released on .'''
 +
* GOA download link: '''[http://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/103.S_flexneri_301.goa Click here to download].'''
 +
* Time taken to import: '''0.06 minutes'''
 +
** Note:
 +
 
 +
Name of .gdb file (give filename and upload and link to compressed file):
 +
* Time taken to export: ''' 1 Hours, 32 Minutes, 33 Seconds '''
 +
** Start time: '''4:06:13 PM PM PDT'''
 +
** End time: '''5:38:46 PM PDT'''
 +
** Note:
  
 
{{Template:Troque_Journal}}
 
{{Template:Troque_Journal}}

Revision as of 00:13, 22 November 2015

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Things to note

  • Taxonomy ID: 623
  • UP000001006
  • File management system: Wiki

Export Information

Version of GenMAPP Builder:

  • gmbuilder-3.0.0-build-5

Computer on which export was run:

  • Front of the room, 3rd computer from the right.

Postgres Database name:

  • 'Shigella flexneri 20151911'

UniProt XML filename (give filename and upload and link to compressed file):

  • UniProt XML version (The version information can be found at the UniProt News Page): UniProt release 2015_11
  • UniProt XML download link: Click here
  • Time taken to import: 4.48 minutes
    • Note:

GO OBO-XML filename (give filename and upload and link to compressed file):

  • GO OBO-XML version (The version information can be found in the file properties after the file downloaded from the GO Download page has been unzipped): Version created on 11/19/2015 (at 2:24 AM)
  • GO OBO-XML download link: Click here to download.
  • Time taken to import: 7.00 minutes
  • Time taken to process: 4.99 minutes
    • Note:

GOA filename (give filename and upload and link to compressed file):

  • GOA version (News on this page records past releases; current information can be found in the Last modified field on the FTP site): Version released on .
  • GOA download link: Click here to download.
  • Time taken to import: 0.06 minutes
    • Note:

Name of .gdb file (give filename and upload and link to compressed file):

  • Time taken to export: 1 Hours, 32 Minutes, 33 Seconds
    • Start time: 4:06:13 PM PM PDT
    • End time: 5:38:46 PM PDT
    • Note:

Assignment Links

Weekly Assignments

Individual Journal Entries

Shared Journal Entries

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