| Age | Commit message (Expand) | Author |
|---|
| 2020-09-28 | Fix casting error...* wqflask/base/trait.py (retrieve_trait_info): If the
description_string or discription_display value return a None object,
evaluate to an empty string. Fixes errors related to *len(None)*.
| BonfaceKilz |
| 2020-09-28 | Convert None to "" in if statement...* wqflask/base/trait.py: Fixes error parsing error: "(GeneNetwork
error: float argument required, not NoneType)"
| BonfaceKilz |
| 2020-09-17 | Convert "target_string" to a str type...* wqflask/base/trait.py (retrieve_trait_info): Convert "target_string"
to a str, otherwise an exception will be thrown if it's None.
| BonfaceKilz |
| 2020-09-17 | Apply pep8...* wqflask/base/trait.py: Apply pep8.
* wqflask/utility/authentication_tools.py: Ditto.
| BonfaceKilz |
| 2020-08-27 | Remove python2 string processing to utf-8...* wqflask/base/trait.py: Remove python2 codecs.BOM_UTF8 methods.
* wqflask/wqflask/search_results.py: Remove utf-8 decode method on string.
| BonfaceKilz |
| 2020-08-27 | Replace mysqldb's "escape" with the one from utils.db_tools...Mysqldb's escape returns a binary string. Use utils.db_tools which adds an extra
step of converting the binary string to a string.
| BonfaceKilz |
| 2020-08-27 | Replace "string.split" & "string.join" with python's inbuilt methods | BonfaceKilz |
| 2020-08-26 | Remove "from __future__ import new_feature" statements...See: <https://docs.python.org/2/library/2to3.html#2to3fixer-future>
| BonfaceKilz |
| 2020-08-26 | Rename "unicode" to "str"...See: <https://docs.python.org/2/library/2to3.html#2to3fixer-unicode>
| BonfaceKilz |
| 2020-08-20 | Add backward support for urllib...* wqflask/base/trait.py: Remove unused imports
* wqflask/db/call.py (Bench): Add urllib2 fallback for python2
| BonfaceKilz |
| 2020-08-19 | Remove extra whitespace(or add it) from comma separated items...See: <https://docs.python.org/2/library/2to3.html#2to3fixer-urllib>
| BonfaceKilz |
| 2020-08-19 | Handle the rename of urllib and urllib2 to the urllib package...See: <https://docs.python.org/2/library/2to3.html#2to3fixer-urllib>
| BonfaceKilz |
| 2020-08-19 | Replace backtick repr with the repr() function...* wqflask/base/trait.py: See
<https://docs.python.org/2/library/2to3.html#2to3fixer-repr>
| BonfaceKilz |
| 2020-08-19 | Wrap `raise` statements in parenthesis...Run `2to3-3.8 -f raise -w .`
See: <https://docs.python.org/2/library/2to3.html#2to3fixer-raise>
| BonfaceKilz |
| 2020-08-19 | Fix dictionary iteration methods...Run `2to3-3.8 -f dict -w .`
See: <https://docs.python.org/2/library/2to3.html#2to3fixer-dict> and
<https://stackoverflow.com/questions/17695456/why-does-python-3-need-dict-items-to-be-wrapped-with-list>
| BonfaceKilz |
| 2020-07-21 | Fixed issue that caused group codes to be wrong sometimes | zsloan |
| 2020-07-14 | Added binary casting to phenotype trait info query to fix unicode issue | zsloan |
| 2020-07-08 | Removed remaining unused references to the old qtlreaper | zsloan |
| 2020-07-06 | Temporarily commented out the line in trait.py doing the encoding until we fi... | zsloan |
| 2020-07-06 | Fixed some of the logic with how traits are authenticated to avoid situation ... | zsloan |
| 2020-06-29 | Change that hopefully fixes some encoding stuff | zsloan |
| 2020-06-24 | Temporary partial fix to issue of resources without info; need to add somethi... | zsloan |
| 2020-06-20 | Fixed ports for proxy (though I need to add the port to global variables) and... | zsloan |
| 2020-06-20 | Added some admin functionality and fixed issue with temp traits | zsloan |
| 2020-06-17 | Adding all the authentication stuff | zsloan |
| 2020-06-05 | Commiting other current group/resource management code, plus the new files | zsloan |
| 2020-06-04 | Added back in trait info queries for situations where the proxy isn't running | zsloan |
| 2020-06-04 | Really should have split this into many more commits:...- Now use proxy to pull trait data and hide traits/results that the user
doesn't have view permission for
- Created a factory method for creating trait ob so it can return None
when user doesn't have view permissions (this is why such a large number
of files are changed)
- Added metadata to permutation export
- Added current group management code
- Added fixed password verification e-mail code
| zsloan |
| 2020-05-28 | Added lines calling proxy for publish datasets + added some resource redis qu... | zsloan |
| 2020-04-24 | Replaced hard-coded instances of GN2 urls with ones pulled from settings file | zsloan |
| 2020-04-06 | Added Mean column for phenotype traits in search and global search result tables | zsloan |
| 2020-03-09 | I think this should complete consolidating all the collections code. | zsloan |
| 2020-03-03 | Forgot to replace code referring to hmac function user_manager | zsloan |
| 2020-02-06 | Fixed encoding issue | zsloan |
| 2020-01-22 | Fixed issue that caused submitting temp traits to not work | zsloan |
| 2020-01-08 | Made change that I think should fix the unicode stuff once and for all | zsloan |
| 2019-12-04 | Fixed error that sometimes occurs if there's no mean expression and changed i... | zsloan |
| 2019-11-21 | Use updated phenotype display IDs for all phenotypes with codes now, not just... | zsloan |
| 2019-11-21 | Added 3-letter codes to unpublished phenotype traits and fixed issue with ord... | zsloan |
| 2019-10-04 | Fixed issue where there was an error if the REST API used for aliases was down...Added option to download as JPEG in addition to SVG for basic stats figures
| zsloan |
| 2019-08-01 | Updated aliases to get all species aliases and remove duplicates | zsloan |
| 2019-08-01 | Added wikidata aliases...Fixed year to not be a hyperlink when no pubmed id
Fixed first column width so it doesn't go onto two lines for trait details
| zsloan |
| 2019-08-01 | Made some more aesthetic changes to various pages and charts/figures...Added some information to the mapping loading page
| zsloan |
| 2019-07-18 | Made change that should fix encoding issue, fingers crossed | zsloan |
| 2019-05-06 | Removed some unused imports of htmlgen...Fixed a bug that sometimes occurred in search results
Changed order of items on index page
| zsloan |
| 2019-03-18 | - Added PCA traits to correlation matrix. You can't change their names yet or......but you can click them and access them from the trait page. I'll add the option to access them from the corr matrix page as well,
but adding the option to change their names might be trickier since they're currently used as their Redis keys. I need some better
way of passing the Redis key around so it can be stored in collections, but this is tricky without changing the structure in ElasticSearch
- Fixed the way temp traits work so you can use them with various functions, like mapping, correlations, network graph, etc
- Fixed some appearance issue where the network graph options were too wide if a trait name was too long
| zsloan |
| 2019-03-07 | Changed the way covariates are displayed when selected for mapping...Made the outlier notification appear for all mapping methods
Removed some misleading text saying "Block samples" from the Transform and Filter Data section
| zsloan |
| 2019-02-22 | Fixed some appearance issues with several tables...Fixed issue where cofactor selection screens were broken
Changed case attributes to be applied across groups, though need to discuss this with Rob since it shouldn't always be done this way
Added new inversion transformation
| zsloan |
| 2018-10-01 | - Can now remove cofactors from correlation scatterplot and select them by ju......- Cofactor color picker now works in Safari/Macs
- Displays N for relevant samples in trait page sample table
- Don't show bar chart when N>256
- Mapping loading page contents better centered
- Anonymous collections timeout correctly listed as 30 days now
- Minor allele frequency can actually be changed for GEMMA now (previously didn't work)
- Fixed transcript position marker location for mapping results
- Notifies user if their e-mail isn't associated with an account when they attempt to request forgotten password
- Users can now map with submitted traits
- Histogram width changes depending upon number of bins (need to improve this still)
- Improved Q-q plot (previously called "probability plot")
| zsloan |
| 2018-08-14 | Added cofactors to correlation scatterplot and changed it to use Plotly...Added Phenogen track to mapping results
Added comparison bar chart figure
Simplified global search to not build trait/dataset objects, which speeds thing up considerably
Fixed correlation matrix to correctly deal with 0 values
Fixed issue where anonymous collections couldn't be created if none already existed
| zsloan |
