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2020-08-07	afpowell	retain transposition of matrix for imputation	commit \| commitdiff \| tree
2020-08-07	afpowell	test commenting of unecessary lines	commit \| commitdiff \| tree
2020-07-24	afpowell	updated file paths for pca in gwas	commit \| commitdiff \| tree
2020-07-20	afpowell	remove dataset id alert	commit \| commitdiff \| tree
2020-07-17	afpowell	fix dataset selector for gwas	commit \| commitdiff \| tree
2020-05-21	afpowell	fix js variable name that was sending toggle switch...	commit \| commitdiff \| tree
2020-05-11	afpowell	Merge branch 'master' into topic/fix_field_book_trait_file_c...	commit \| commitdiff \| tree
2020-05-11	afpowell	clean up commented lines and alerts in javascript	commit \| commitdiff \| tree
2020-05-11	afpowell	fix trait file by individual selection	commit \| commitdiff \| tree
2020-05-01	afpowell	fix issue where number of selected traits always showed...	commit \| commitdiff \| tree
2020-04-20	afpowell	adjust the dataset file test to not be passed the catalyst...	commit \| commitdiff \| tree
2020-04-17	afpowell	change gwas and dataset to not pass catalyst context	commit \| commitdiff \| tree
2020-03-30	afpowell	Merge branch 'master' into topic/dataset_file_and_gwas_with_...	commit \| commitdiff \| tree
2020-03-25	afpowell	fix R script to work with germplasmName instead of...	commit \| commitdiff \| tree
2020-03-25	afpowell	send genotype data directly to cluster without subsetting	commit \| commitdiff \| tree
2020-03-16	afpowell	Merge branch 'topic/additional_links_for_sequenced_accession...	commit \| commitdiff \| tree
2020-03-16	afpowell	merge master to resolve conflicts	commit \| commitdiff \| tree
2020-03-14	afpowell	add additional links to the test	commit \| commitdiff \| tree
2020-03-14	afpowell	change order for consistency, fix typos for ftp and...	commit \| commitdiff \| tree
2020-03-14	afpowell	hide stock field in edit seq info dialog	commit \| commitdiff \| tree
2020-03-13	afpowell	additional fixes to dialog box	commit \| commitdiff \| tree
2020-03-13	afpowell	add ftp and ncbi links to sequenced accession info	commit \| commitdiff \| tree
2020-03-13	afpowell	set up cache for gwas	commit \| commitdiff \| tree
2020-02-19	afpowell	use uniqueness to ensure sequencing entries only appear...	commit \| commitdiff \| tree
2020-02-19	afpowell	put old sequencing table material in the seq accessions...	commit \| commitdiff \| tree
2020-02-04	afpowell	add sequenced accessions to sgn toolbar	commit \| commitdiff \| tree
2020-02-04	afpowell	fix link to stock details page	commit \| commitdiff \| tree
2020-02-03	afpowell	fix type in stderr	commit \| commitdiff \| tree
2020-02-03	afpowell	use CXGN Stock sequencingInfo	commit \| commitdiff \| tree
2020-02-03	afpowell	fix typo and some formatting in transfer_genome_project_info...	commit \| commitdiff \| tree
2020-01-06	afpowell	set up dosage matrix download using iterator	commit \| commitdiff \| tree
2020-01-06	afpowell	Change output to show germplasmName instead of germplasmDbId	commit \| commitdiff \| tree
2020-01-04	afpowell	Add GT and additional info to vcf if available	commit \| commitdiff \| tree
2019-12-30	afpowell	return filehandle instead of filepath for vcf	commit \| commitdiff \| tree
2019-12-30	afpowell	intial set up of VCF written by iterator	commit \| commitdiff \| tree
2019-12-27	afpowell	fix merge conflict of cache file	commit \| commitdiff \| tree
2019-12-26	afpowell	include genotype search cache file system	commit \| commitdiff \| tree
2019-12-23	afpowell	Merge branch 'master' into topic/wizard_genotype_download_la...	commit \| commitdiff \| tree
2019-11-26	afpowell	alter to use the transposition script in bin, not gbs...	commit \| commitdiff \| tree
2019-11-26	afpowell	alter format of vcf-like output	commit \| commitdiff \| tree
2019-11-26	afpowell	fixed transposition as cluster job	commit \| commitdiff \| tree
2019-11-25	afpowell	run transposition as a cluster job	commit \| commitdiff \| tree
2019-11-25	afpowell	use tempfile to write data, then copy to return file	commit \| commitdiff \| tree
2019-11-20	afpowell	fix link to create genotyping plate	commit \| commitdiff \| tree
2019-11-20	afpowell	Use code from Dataset iterator for wizard vcf download	commit \| commitdiff \| tree
2019-11-15	afpowell	changes to solgwas ajax request to avoid double submission	commit \| commitdiff \| tree
2019-11-13	afpowell	alter run gwas button	commit \| commitdiff \| tree
2019-11-13	afpowell	increase timeout by factor of 1000 for gwas ajax	commit \| commitdiff \| tree
2019-11-13	afpowell	add informative error message to ajax	commit \| commitdiff \| tree
2019-11-13	afpowell	change to add timeout to solgwas ajax	commit \| commitdiff \| tree
2019-11-13	afpowell	remove stderr printing in Dataset File	commit \| commitdiff \| tree
2019-11-13	afpowell	set up initial testing of Genotype Search	commit \| commitdiff \| tree
2019-11-11	afpowell	retrieve germplasmDBId and enable interator retriever...	commit \| commitdiff \| tree
2019-10-31	afpowell	set up iterator and get next function	commit \| commitdiff \| tree
2019-10-24	afpowell	updating genotype search functions for iterator	commit \| commitdiff \| tree
2019-10-21	afpowell	add submit host to enable cluster job	commit \| commitdiff \| tree
2019-10-10	afpowell	Set up first version of line-by-line genotype dataset...	commit \| commitdiff \| tree
2019-02-13	afpowell	mason/tools/solgwas/index.mas	commit \| commitdiff \| tree
2019-02-13	afpowell	edit to solgwas help page	commit \| commitdiff \| tree
2019-02-12	afpowell	Adjust histogram back to non-cluster form, adjust PCA...	commit \| commitdiff \| tree
2019-02-11	afpowell	copy image files back to temp dir for diplsay	commit \| commitdiff \| tree
2019-02-11	afpowell	initial setup of temp files on export prod	commit \| commitdiff \| tree
2019-02-11	afpowell	Merge branch 'master' into topic/solgwas_speedup	commit \| commitdiff \| tree
2019-02-08	afpowell	wait for cluster job to finish	commit \| commitdiff \| tree
2019-02-06	afpowell	Update commented old Rscript commands	commit \| commitdiff \| tree
2019-02-06	afpowell	clean up redundant code in separation of PCA from GWAS...	commit \| commitdiff \| tree
2019-01-11	afpowell	give user alert if solgwas button attempted without...	commit \| commitdiff \| tree
2019-01-11	afpowell	disable histogram button if trait not selected and...	commit \| commitdiff \| tree
2019-01-10	afpowell	modifying the layout on the page	commit \| commitdiff \| tree
2019-01-10	afpowell	remove Select Trait button; move code under Select...	commit \| commitdiff \| tree
2019-01-10	afpowell	removed get_shared_phenotypes sub and commented lines...	commit \| commitdiff \| tree
2019-01-10	afpowell	vega-lite histogram working for traits	commit \| commitdiff \| tree
2019-01-10	afpowell	getting vega trait histogram started	commit \| commitdiff \| tree
2019-01-04	afpowell	set up grabbing data for vega histogram	commit \| commitdiff \| tree
2018-12-31	afpowell	reset trait selector when dataset is changed	commit \| commitdiff \| tree
2018-12-28	afpowell	set up for slurm	commit \| commitdiff \| tree
2018-12-21	afpowell	alter marker number and remove histogram	commit \| commitdiff \| tree
2018-12-14	afpowell	implement marker subsetting	commit \| commitdiff \| tree
2018-10-19	afpowell	Merge branch 'master' into topic/gwas_web	commit \| commitdiff \| tree
2018-10-18	afpowell	change colour of histogram	commit \| commitdiff \| tree
2018-10-18	afpowell	change text for checkbox	commit \| commitdiff \| tree
2018-10-17	afpowell	making phenotype loading upon dataset selection dependent...	commit \| commitdiff \| tree
2018-10-12	Lukas Mueller	fix undefined value warnings in File.pm	commit \| commitdiff \| tree
2018-10-08	afpowell	Merge branch 'master' into topic/gwas_web	commit \| commitdiff \| tree
2018-09-21	afpowell	check/fix newlines in phenotype dataset retrieval to...	commit \| commitdiff \| tree
2018-09-12	afpowell	Make substitution to fix file paths of output figures	commit \| commitdiff \| tree
2018-09-12	afpowell	attempt fix so pmatch in R script doesn't crash	commit \| commitdiff \| tree
2018-08-12	afpowell	Remove hard path in R script	commit \| commitdiff \| tree
2018-08-10	afpowell	fix R script path	commit \| commitdiff \| tree
2018-08-10	afpowell	Fix path to R Script for solgwas	commit \| commitdiff \| tree
2018-08-10	afpowell	Add dereferencing to avoid sort keys blessed hash exception	commit \| commitdiff \| tree
2018-08-10	afpowell	Adjusted R script use of phenotype input data to avoid...	commit \| commitdiff \| tree
2018-08-09	afpowell	set new login redirect	commit \| commitdiff \| tree
2018-07-23	afpowell	Merge branch 'master' into topic/gwas_web	commit \| commitdiff \| tree
2018-06-29	afpowell	Cosmetic changes to plots and added help page	commit \| commitdiff \| tree
2018-06-28	afpowell	Added selectors for kinship and PC covariates	commit \| commitdiff \| tree
2018-06-28	afpowell	fixed use of figure file names	commit \| commitdiff \| tree
2018-06-01	afpowell	add toggle to include location in model	commit \| commitdiff \| tree
2018-06-01	afpowell	add R script, clean up alerts	commit \| commitdiff \| tree
2018-05-30	afpowell	Add working modal to ajax request	commit \| commitdiff \| tree
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