NEWS
dbparser 2.0.3 (2024-04-20)
Enhancements
- Updated unit tests with latest DrugBank DB info v 5.1.12
Bugs Fixes
- Fixed "Drug Targets has two
drugbank_id columns" bug (#163)
dbparser 2.0.2 (2024-02-16)
Enhancements
- Replaced "-" with "_" in tibbles column names (#111)
- Renamed "primary_key" to "drugbank_id" in parsed drugs "general_information" tibble (#111)
- Replaced "parent_key" keywords in different tibbles column names with original parent name (#111)
- Updated Vignette to use interactive canvasXpress package plots
dbparser 2.0.1 (2023-03-27)
Bugs Fixes
- Fixed output references (#147)
- Updated
parseDrugBanKparameters default values (#146)
- Fixed package documentation references (#144)
- Fixed CRAN error on some of linux info (#145)
dbparser 2.0.0 (2023-03-17)
Breaking changes
- Deprecated saving parsed data into given database (#140)
- Deprecated saving parsed data into a csv file (#140)
- Deprecated old structure public methods (#141)
- Updated minimum R required version to 3.5 (#143)
New features
- Introduced new methods for paring DrugBank DB and returning dvobject (#141)
Major Updates
- Updated unit tests to work with new data structure (#141)
Minor Fixes
- Removed RMariaDB dependency (#129)
- Fix pkgdown configuration for reference (#136)
dbparser 1.2.0 (2020-08-26)
UI Changes
- Introduce progress bar in parser functions
New Parsers
Collective Parsers
drugs, cett and References Parsers
Elements Parsers
attachments parsers for drugs and CETTdrug_pharmacology parser- Rename
drugs_books parser to drugs_textbooks
- Rename
drug_all parser to run_all_parsers
- Rename
drug parser to drug_general_information
Documentation Update:
- Add returned parsed data structure
- Explain the returned data functionality as a whole and for each elements
- Point out to related/similar parsers
Package design
For those who thinking to contribute in dbparser, now parsers are implemented
as R6 classes.
Minor Fixes
- Update database saver functions to accommodate new DrugBank data size.
dbparser 1.1.2 (2020-06-08)
Major Changes
- Enhance many memory and performance issues for many parsers.
- Change the drug classification representations to extract more useful
information.
Minor Changes
- Change some drug tibbles features names
DEFUNCT
- Size columns in
drugs main table is no longer exist, will do full
statistical analysis later using dvminer package.
dbparser 1.1.1 (2020-05-10)
- Fix column size issue while importing into SQL Server (#91)
- Fix dbparser and upcoming CRAN release of dplyr issues (#92)
- Fix CRAN Notes (#93)
- Fix package documentation and site references
dbparser 1.1.0 (2020-02-21)
Major Changes
- Functions have been splitted into 6 categories DrugBank Database Loading,
Carriers, Targets, Transporters, Drug and common parsers. All function names
are changed to reflect the function family. The related documentation is also
updated (#66, #75).
dbparser now can cite the package by calling citation("dbparser") (#71).- Adding more user friendly error messages (#76, #81).
- User can now pass
DBI database connection to parser functions as an
argument beside SQLite and MariaDB (#87).
DEFUNCT
open_db, open_mdb and close_db functions are no longer supported.
Creating and maintaining database is completely user responsibility and the
database connection can be passed to parser functions (#87).
DOCUMENTATION FIXES
- New tutorials for how to use
dbparser have been created (#78, #79).
- Contribution guide has been added.
- Code of conduct has been added (#70).
- Enhance function reference documentation to include section for each type (#68).
dbparser 1.0.4 (2019-08-28)
- Fix save drugs tibbles as csv several issues.
- Update SQL database tibbles saver functions.
- Update SQL database saver functions documentations.
- Support MariaDB and introduce related functionalities.
dbparser 1.0.3 (2019-07-11)
- Fix CRAN errors and notes
dbparser 1.0.2 (2019-07-08)
- Fix zip file location issue
- Replace Secondary and third keys columns from drug framework with other_keys column that contains any other keys that might exist in addition to the primary key
- Add average-mass, monoisotopic-mass and calculated-properties parsers.
- Support saving parsed drugs related parsed database as csv
dbparser 1.0.1 (2019-04-16)
- Fix CRAN Note
- Improve documentation
- Refactor unused functions
- Remove Count features from drug data set
- Fix several typos in documentation and code
- Fix consistency issue of CLASS of tibbles Returned by dbparser
- Check if DrugBank database exist before parsing
- Add support for international_brands and salts elements
- Properly rename some features to have clear names
- Reduce datasets size by getting unique rows only
- Support reading zip file containing DrugBank xml database
dbparser 1.0.0 (2018-12-17)
- Initial release that contains core functionalities