Bhamilton18 Week 15 - Revision history

Bhamilton18: fixed typos

2017-12-14T05:50:30Z

fixed typos

Bhamilton18: Added one more screenshot of GRNsight page

2017-12-14T05:49:40Z

Added one more screenshot of GRNsight page

Bhamilton18: Added screenshots and code examples

2017-12-14T05:45:52Z

Added screenshots and code examples

Bhamilton18: Updated notebook for final deliverables and coding

2017-12-14T05:25:35Z

Updated notebook for final deliverables and coding

Bhamilton18: added wiki signature to acknowledgments

2017-12-11T20:58:44Z

added wiki signature to acknowledgments

Bhamilton18: Created notebook and added references, acknowledgments and notebook notes

2017-12-11T05:22:50Z

Created notebook and added references, acknowledgments and notebook notes

New page

==Notebook for Week 15==
#This week Zach and I focused on major integration of the JASPAR, Gene Database APIs and Page Design teams.
#Due to some communication issues of Week 14, Zach and I were backtracked on certain integrations with other groups, but quickly made up for lost time.
#Our task for week was to add IDs from: NCBI, SGD, Ensembl, Uniprot and JASPAR to the top of the gene page.
#By communicating with Dr. Dionisio we found the correct ID format to reference the info.html file as well as the api.js file.
#*The api.js file contains the data and info.html contains the page layout.
#Each ID was created and required a few git pull commands as the other teams needed to fix api calls and retrieve the correct data.
#Once this was completed, Zach and I worked with the page design team to find places for the data found throughout the api teams api.js file.
#

==Acknowledgments==
#I worked with [[User:Zvanysse|Zachary Van Ysseldyk]] to collaborate on the integration portion of our assignment. We meet in person as well as messaged each other with questions.
#We collaborated with Dr. Dionisio on the id syntax and class referencing portions.
#Interaction and Integration team worked with JASPAR, Gene Database APIs and Page Design teams throughout integrations.
#'''While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.'''
==References==

LMU BioDB 2017. (2017). Deliverables. Retrieved November 14, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/GRNsight_Gene_Page_Project_Deliverables

LMU BioDB 2017. (2017). Week 15. Retrieved December 5, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_15

{{Bhamilton18}}

@@ Line 43: / Line 43: @@
 This week Katie, Zach and I were able to meet up twice in order to finalize our project presentation details. We practiced our respective parts and discussed our progress within our team tasks. As noted above the Coders had quite a few tasks to complete, and the Data Analyst and Project Manager were able to collaborate and help each other of the data progress and outputs. Our presentation was completed on Monday night. We communicated through text message, in person and created a google slide deck in order to collaborate off site. Zach and I inputed images, titles and text into the coding portion of the assignment as well as give flow chart details to Katie to update the presentation.
-As for the final deliverables, the Coders will be doing a final pull and push request December 14 and potential the 15th if any major changes need to be made. Our team will be communicating via text message and google docs in order to complete the paper portion of the assignment. Zach and I will be discussing our respective parts of the project and will divide the work load for the paper.
+As for the final deliverables, the Coders will be doing a final pull and push request December 14 and potentially the 15th if any major changes need to be made. Our team will be communicating via text message and google docs in order to complete the paper portion of the assignment. Zach and I will be discussing our respective parts of the project and will divide the work load for the paper.
 Our deliverables can be seen here: [[Lights, Camera, InterACTION! Deliverables|LCI! Deliverables]]

@@ Line 16: / Line 16: @@
 #Each ID was created and required a few git pull commands as the other teams needed to fix api calls and retrieve the correct data.
 #*As of today, December 13 2017, the information is pulling all correct data and is waiting on a few data points form the API team.
 #After the IDs had been created Zach and I focused on using the similar format for all other p-tagged classes that required data.
 #The reason we clarify p-tag was because for the gene frequency matrix and sequence logo the syntax was difference as they required an image and additional code to produce a table.

@@ Line 16: / Line 16: @@
 #Each ID was created and required a few git pull commands as the other teams needed to fix api calls and retrieve the correct data.
 #*As of today, December 13 2017, the information is pulling all correct data and is waiting on a few data points form the API team.
-#After the IDs had been create Zach and I focused on using the similar format for all other p-tagged classes that required data.
+#After the IDs had been created Zach and I focused on using the similar format for all other p-tagged classes that required data.
 #The reason we clarify p-tag was because for the gene frequency matrix and sequence logo the syntax was difference as they required an image and additional code to produce a table.
 #*While trying to create a table for the frequency matrix our team ran into a few bumps in the code and required Dr. Dionisio's help, and Eddie B's help to format a table.
 #*The table now uses multiple for-loops to integrate through the matrix elements as the sizing per gene changes for every gene. Anywhere from 0-15 elements.
 #*An additional hurtle that needed jumping over was the sequence logo image. Through Dr.Dionisio's help, we created a link between the image src file and the JASPAR API call. Talking with Eddie B. about how his call retrieves the image URL was very helpful in retrieving this information.
 #After all the data had place holders, actual data or images, the final step was to create an appealing layout of the information. Through collaboration with the Page-Design team our ideas and the biologists hopes were implemented and hope to be complete by December 14.
 ==Team Deliverable Progress==
@@ Line 27: / Line 42: @@
 As for the final deliverables, the Coders will be doing a final pull and push request December 14 and potential the 15th if any major changes need to be made. Our team will be communicating via text message and google docs in order to complete the paper portion of the assignment. Zach and I will be discussing our respective parts of the project and will divide the work load for the paper.
 ==Acknowledgments==

@@ Line 1: / Line 1: @@
-==Notebook for Week 15==
+==Coding Updates==
 #This week Zach and I focused on major integration of the JASPAR, Gene Database APIs and Page Design teams.
 #Due to some communication issues of Week 14, Zach and I were backtracked on certain integrations with other groups, but quickly made up for lost time.
-#Our task for week was to add IDs from: NCBI, SGD, Ensembl, Uniprot and JASPAR to the top of the gene page.
+#*These backtracks include: gene id syntax and api referencing, as well as page-design collaboration on where classes should go.
 #By communicating with Dr. Dionisio we found the correct ID format to reference the info.html file as well as the api.js file.
-#*The api.js file contains the data and info.html contains the page layout.
+#*'''This looks as follows:'''
 #Each ID was created and required a few git pull commands as the other teams needed to fix api calls and retrieve the correct data.
-#Once this was completed, Zach and I worked with the page design team to find places for the data found throughout the api teams api.js file.
+#*As of today, December 13 2017, the information is pulling all correct data and is waiting on a few data points form the API team.
+#After the IDs had been create Zach and I focused on using the similar format for all other p-tagged classes that required data.
 ==Acknowledgments==
-#I worked with [[User:Zvanysse|Zachary Van Ysseldyk]] to collaborate on the integration portion of our assignment. We meet in person as well as messaged each other with questions.
+#I worked with [[User:Zvanysse|Zachary Van Ysseldyk]] to collaborate on the integration portion of our assignment. We met in person as well as messaged each other with questions.
 #We collaborated with Dr. Dionisio on the id syntax and class referencing portions.
-#Interaction and Integration team worked with JASPAR, Gene Database APIs and Page Design teams throughout integrations.
+#Interaction and Integration team worked with JASPAR team to check in about the frequency matrix and sequence logo syntax.
 #'''While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.'''
 [[User:Bhamilton18|Bhamilton18]] ([[User talk:Bhamilton18|talk]]) 12:58, 11 December 2017 (PST)