User talk:HDelgadi
From LMU BioDB 2013
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Week 9 Feedback
Your week 9 work has (finally) been reviewed:
- Three out of the four file versions, as specified by the testing report template, are not listed.
- You logged all of the needed import/processing/export times.
- You successfully uploaded your .gdb file to the wiki.
- You successfully ran the Tally Engine.
- You successfully ran xmlpipedb-match.
- You successfully ran the appropriate PostgreSQL query.
- You successfully examined your .gdb file in Microsoft Access and compared its data against the benchmark version of the V. cholerae gene database.
- You correctly noted differences and similarities in the ID tallies from your various counts.
- You clearly indicated the ID pattern used for your ID searches/tallies.
- Your lab notebook effectively documents your activities and results for this assignment.
Finally, your work was submitted on time and all specified wiki links and navigational aids were correctly included. Well done!
—Dondi (talk) 13:24, 29 November 2013 (PST)
Week 8 Feedback
- I have reviewed your .xls and .txt files from part 1 of the Week 8 assignment. They are correct and ready to go for Tuesday. — Kdahlquist (talk) 15:27, 14 October 2013 (PDT)
Week 1 Feedback
You did generally well for this first time out; do complete the wiki checklist and be consistent with summaries, as much as possible.
Items for completion/follow-up:
- Snail mail address
- Change summaries—try to enter these more consistently.
- Create a new wiki page
- Link to an external site
- Create a numbered list
- Comments inside the wiki markup
- Upload and link to an image
- Upload and link to a file
- Create and use a template
- Link to an assignment (Week n) page
- Link to the shared journal from your user page
- Place your signature in the shared journal page
—Dondi (talk) 08:44, 3 September 2013 (PDT)
Week 1 Follow-Up
Thanks very much for completing your wiki checklist! Some notes on your latest work:
- You did the HHMI external link technically correctly, but notice how it appears as [1] on your page. You can give this link some custom text by adding a space after the address, and putting the text after that space, like this (edit this page to see how it was done).
- Your confusion about templates is noted (I saw that in your commented-out wiki markup!). You are creating it right; your confusion has to do with using it. Well, I’m using it down here:
(your template starts below)
- Link: [Protegen]
Hilda Delgadillo
(your template just ended above)
- ...note the curly braces (when you edit this page) and the removal of “Template:” That’s it! Whenever you write this into a wiki page, your template will show up there instead.
- Finally, you still have not “signed” your shared journal entries, but I know you can do the signature because you did it when you left a question on my and Dr. Dahlquist’s talk pages. Make sure you do that on your shared journal entries too; it gives your reflection responses more of that “journal entry” feel.
—Dondi (talk) 21:28, 7 September 2013 (PDT)
Week 2 Journal Feedback
- Thank you for submitting your assignment on time.
- As noted in class, you had a couple of "point mutations" in frames +2 and +3.
- Remember to add the category "journal entry" to your individual journal page. If you add this category to your template and then use the template on your page, you will always remember to fulfill this part of your assignment.
- You have the opportunity to earn back the points you missed by making the corrections requested on the Week 3 Assignment page and the correction listed above. The corrections are due by midnight on Friday, September 20 (thursday night/friday morning).
- To answer your question about the Nirenberg reading, he was talking about the solubility of polyphenylalanine because he wanted to make sure that the product that was translated from the poly(U) was the same thing as a lab standard of polyphenylalanine. So he had to learn about that to make sure that they were the identical chemical.
— Kdahlquist (talk) 14:52, 10 September 2013 (PDT)
P.S. I answered your question on my talk page. — Kdahlquist (talk) 14:55, 10 September 2013 (PDT)
Week 2 Follow-up
- Thank you for making the corrections to your translation.
- The category is still missing for this page.
— Kdahlquist (talk) 14:56, 11 October 2013 (PDT)
Week 3 Feedback
- Thank you for submitting your assignment on time!
- Your experience with “Where’s my stuff” typically occurs when a computing system is strongly protecting file extensions like .txt and .html. Different operating systems apply protections differently. Typically, there is a setting one can hit that tells the computer that you know what you are doing with respect to these extensions, after which you will then have greater control over these. In any case, nothing to worry about; what matters is that you got a sense for what role these file extensions play.
- Your sed and match skills are great! All of your commands were correct.
- Regarding the match question on "James," note that these look very much like names, so it is safe to guess that this search pattern may indicate a scientist or author (given the type of file you were searching).
- Your user page was missing a link to the Week 3 assignment page. Strongly consider using a template for this, so that you will only need to edit these links in one place. Let me know if you need additional help with getting a template to work as needed.
—Dondi (talk) 21:40, 14 September 2013 (PDT)
Week 4 Feedback
Thank you for submitting your work on time! Here’s how your “automated annotation” work turned out, item by item. Items that had issues are italicized:
- -35 box was correctly identified with an appropriate command.
- -10 box was correctly identified with an appropriate command.
- Your transcription start site was off by one base.
- Ribosome binding site was correctly identified with an appropriate command.
- Start codon was correctly identified with an appropriate command.
- Stop codon was correctly identified with an appropriate command.
- You missed that the terminator includes 4 additional base pairs after the hairpin.
- Your mRNA strand is short—you only returned the start-to-stop codon, but transcription actually goes from the transcription start site to the end of the terminator.
- You determined the correct amino acid sequence with an appropriate command.
In terms of your wiki link routine, everything was there except for:
- A link from your user page to the Week 4 assignment.
Let me know if you have any questions.
—Dondi (talk) 21:36, 24 September 2013 (PDT)
Makeup Point Update
You have been credited for making the following change(s) to a wiki link checklist:
- A link from your user page to the Week 4 assignment was added
If you have any questions, let me know. Thank you!
—Dondi (talk) 21:40, 29 September 2013 (PDT)
Week 5 Feedback
This is feedback on the Week 5 individual assignment (UniProt Exercise) and shared class reflection. Feedback on your Database wiki page will come later.
- Thank you for submitting your assignment on time.
- Your electronic lab notebook was a good description of what you did, but the formatting could be improved to be cleaner and easier to read. Starting again with the Week 8 assignment, keeping an online notebook will be an important part of your weekly assignments. Keep in mind the guideline that you or someone else should be able to reproduce everything that you did using only the information on your journal entry page. Your page could have been enhanced by providing additional hyperlinks to the pages you visited.
— Kdahlquist (talk) 16:23, 8 October 2013 (PDT)
Week 5 Database Wiki
- Your assignment is complete, although it looks like some tweaks were made to it after the deadline. From the history, it appears that Mitchell was the main contributor to this page.
- I see that you used a template to move this page content to one with the proper name. There is a better way to move pages, see the drop down arrow next to the "View history" tab at the top of the page.
- Be careful about the formatting of your hyperlinks. Only use two square brackets when linking to internal wiki pages; external links use only single square brackets. Also, the numbering of your page with respect to the questions is off.
- You could have elaborated a bit more on your answers to the questions.
— Kdahlquist (talk) 14:22, 11 October 2013 (PDT)
Week 6 Feedback
Thank you for submitting within your self-imposed extended deadline!
- The wiki markup for movies-with-apostrophe query does not reproduce the query correctly because the wiki interprets repeated apostrophes as starting either bold or italic text; to render the apostrophes accurately, you need the nowiki tag (like this: '''' [view the wiki source to see how it’s done]).
- For the query requesting data on all movies, ratings, and members, you return more columns/fields than specifically requested. When working with databases, we are sensitive to doing more work than necessary, because sometimes this additional work strongly detracts from speed, particularly if the tables contain large numbers of rows.
- All your other database queries were correct and properly documented.
- You have settled very nicely into the habit of providing all of the requested links that make the navigation of your wiki work as easy as possible.
