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Background data check #99

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@gdurif gdurif commented May 7, 2021

WIP fix for issue #98

gdurif added 30 commits April 26, 2021 09:59
@gdurif
update sidebar menu depending on chosen mode (diyabc-rf analysis or d…
bfd21f9 
…ata generation)
@gdurif
remove useless (deprecated) home page ui
a927836
@gdurif
rename home page ui and server
e2cd1de
@gdurif
disable analysis and data generations modules, ready to refactor the …
7ab8d8d 
…app using global environment
@gdurif
simplify file name (replace page denomination by module)
e92aa27
@gdurif
use proj_name and proj_dir in environment
27631f3
@gdurif
check if reactive values before using reactive values to list function
12234d4
@gdurif
use variables from global environment
1c481f6
@gdurif
WIP: refactoring analysis module (TODO: setup, training set simulatio…
e69a4e9 
…n and random forest analysis)
@gdurif
use shinyFeedback package
4e45426
@gdurif
rewrite global environment and rectiveValues in global environment de…
c6a6d8b 
…finition and initialization
@gdurif
rewrite project name module with global environment update
e2eaa88
@gdurif
use shinyFeedback + reset project environment when starting new project
9c7fca9
@gdurif
WIP: refactoring analysis module, DONE: using new version of project …
304f1ea 
…name module
@gdurif
move help regarding project type in helper
c07e7ee
@gdurif
provide initial value for locus_type and seq_mode
c9ea9a4
@gdurif
update corresponding global environment when selecting data type
2df2236
@gdurif
log project directory
02a82a7
@gdurif
move clean on exit to main analysis module + rename proj name module …
dc686a7 
…+ use new data type module
@gdurif
WIP: writing project type module (to choose between new, existing or …
571e918 
…example)
@gdurif
reformat project type/file help + manage project file input with pote…
aff2dd2 
…ntial warnings (TODO: project file check)
@gdurif
update version number for the app refactoring
0639a70
@gdurif
inline doc minor edition + WIP modification of project input file man…
9b0b03f 
…agement in a dedicated source file
@gdurif
WIP: analysis project file input management + corresponding tests (zi…
eff44e4 
…p file input is ok)
@gdurif
manage project file input (+tests)
45bc5dd
@gdurif
test function + WIP parsing statobs
5b02db9
@gdurif
parse and check statobs file (+test)
d120a0a
@gdurif
WIP: rewriting project input file reading, parsing and checking
42a0412
@gdurif
fix typo in file names
2bc4cfd
@gdurif
parse scenario in header file OK + WIP read header file (and TODO rea…
b35baa0 
…d reftable)
gdurif added 26 commits May 4, 2021 15:31
@gdurif
ui to list project files (WIP: ui to check project files and ui for e…
3468f01 
…xample projects)
@gdurif
example proj ui + fix proj cleaning in existing proj ui
44284cc
@gdurif
change naming convention for number of summary stats
a41ffa9
@gdurif
change naming convention for number of scenarii
3a1ae8b
@gdurif
save header file name
42115a7
@gdurif
get number of parameters per scenario when reading header file
8032936
@gdurif
verify consistency between header and reftable
2224699
@gdurif
project configuration setup check (TODO: manage data file)
e2988e2
@gdurif
data file input (TODO: data file check)
7333605
@gdurif
WIP: preparation for data file check refactoring
7f567f9
@gdurif
fix typo
ad9de24
@gdurif
WIP: function to read data files (DONE: function to process and check…
8fa4d22 
… a SNP from IndSeq SNP file)
@gdurif
WIP: function to read data files (DONE: function to check all SNPs fr…
356f151 
…om IndSeq SNP file)
@gdurif
function to read IndSeq SNP data file is ok
3ee6027
@gdurif
function to read poolseq file (+ implementation of monomorphic locus …
e85e356 
…filter)
@gdurif
fix typo + use vector instead of data frame for header file content
0782ccc
@gdurif
function to read mss file (including missing pop check)
bda8161
@gdurif
check data file
c5e6412
@gdurif
remove functions due to refactoring
5e2caa1
@gdurif
fonction to format data info to be printed in the GUI
ea4d8f4
@gdurif
move data check function to another file + minor modification in data…
6222eb6 
… check
@gdurif
Exising and example project reset when changing mode + data check fee…
461df44 
…dback (FIXME: missing req)
@gdurif
fix typo
b130111
@gdurif
additional env variable and improve reset
02befb8
@gdurif
use global env proj type + better job at reseting project (TODO: fix …
70f43fe 
…data check)
@gdurif
WIP: run data check in background
0cd01d9
@gdurif gdurif added enhancement New feature or request WIP Work In Progress: this issue is in the process to be fixed/tackled. labels May 7, 2021
@gdurif gdurif self-assigned this May 7, 2021
@gdurif gdurif mentioned this pull request May 7, 2021
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