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Dev #3

Merged
merged 80 commits into from
Apr 27, 2023
Merged

Dev #3

merged 80 commits into from
Apr 27, 2023

Commits on Apr 2, 2023

  1. separate bash files

    @jcasadogp
    jcasadogp committed Apr 2, 2023
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  2. update on working notebooks - addExperiment

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    jcasadogp committed Apr 2, 2023
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  3. populate db improves, where clause added

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    jcasadogp committed Apr 2, 2023
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  4. updates on sql files

    @jcasadogp
    jcasadogp committed Apr 2, 2023
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  5. change parser name again

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    jcasadogp committed Apr 2, 2023
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  6. change location of bash files

    @jcasadogp
    jcasadogp committed Apr 2, 2023
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  7. separate reactor dictionary

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    jcasadogp committed Apr 2, 2023
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  8. ch

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    jcasadogp committed Apr 2, 2023
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  9. ch

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    jcasadogp committed Apr 2, 2023
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Commits on Apr 4, 2023

  1. changes in bash scripts and functions

    @jcasadogp
    jcasadogp committed Apr 4, 2023
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  2. errors and warnings in the execute db function

    @jcasadogp
    jcasadogp committed Apr 4, 2023
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  3. get all records unified function

    @jcasadogp
    jcasadogp committed Apr 4, 2023
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Commits on Apr 10, 2023

  1. changes in bash running

    @jcasadogp
    jcasadogp committed Apr 10, 2023
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Commits on Apr 11, 2023

  1. DB functions SQL files

    @jcasadogp
    jcasadogp committed Apr 11, 2023
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  2. changes in working notebooks

    @jcasadogp
    jcasadogp committed Apr 11, 2023
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  3. remove echo variables

    @jcasadogp
    jcasadogp committed Apr 11, 2023
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  4. add plotting parser

    @jcasadogp
    jcasadogp committed Apr 11, 2023
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  5. check no empty filtered dataframe goes to db

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    jcasadogp committed Apr 11, 2023
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  6. separate user input funcitons into new script

    @jcasadogp
    jcasadogp committed Apr 11, 2023
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  7. add plotting script and changes needed in other scripts for plot

    @jcasadogp
    jcasadogp committed Apr 11, 2023
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  8. intermediate files

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    jcasadogp committed Apr 11, 2023
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Commits on Apr 17, 2023

  1. changes in working notebooks, bacterial plots

    @jcasadogp
    jcasadogp committed Apr 17, 2023
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  2. changes in the create db query, add unique fields in experiment table

    @jcasadogp
    jcasadogp committed Apr 17, 2023
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  3. chnge plot options

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    jcasadogp committed Apr 17, 2023
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  4. remove specific messages and add choose plot option

    @jcasadogp
    jcasadogp committed Apr 17, 2023
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  5. add get records

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    jcasadogp committed Apr 17, 2023
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  6. change getWhereClause so it add IS NULL

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    jcasadogp committed Apr 17, 2023
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Commits on Apr 19, 2023

  1. advances in plot with the legends

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  2. working notebooks

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  3. changes in count Records, add get where clause function there

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  4. get where clause if no args or if arg is null and change get mean std… 

    … more advanced
    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  5. Update .gitignore

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    jcasadogp committed Apr 19, 2023
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  6. add y label

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    jcasadogp committed Apr 19, 2023
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  7. Merge branch 'dev' of https://github.com/jcasadogp/bacterial_growth i… 

    …nto dev
    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  8. changes in working notebook

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  9. changes in parser

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  10. add regex expressions to the constants file

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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  11. ch

    @jcasadogp
    jcasadogp committed Apr 19, 2023
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Commits on Apr 21, 2023

  1. add advanced queries

    @jcasadogp
    jcasadogp committed Apr 21, 2023
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  2. update the db functions and add the supplementary db functions in thi… 

    …s script
    @jcasadogp
    jcasadogp committed Apr 21, 2023
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  3. remove supplementary db functions from this script

    @jcasadogp
    jcasadogp committed Apr 21, 2023
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  4. change getAllRecords agrs to dictionary and add pert 0 option

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    jcasadogp committed Apr 21, 2023
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  5. add pert 0 option and add name of variables in function callings

    @jcasadogp
    jcasadogp committed Apr 21, 2023
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Commits on Apr 22, 2023

  1. remove unnecesary imports

    @jcasadogp
    jcasadogp committed Apr 22, 2023
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  2. changes in Notebooks

    @jcasadogp
    jcasadogp committed Apr 22, 2023
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  3. cleaning repository to final code

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    jcasadogp committed Apr 22, 2023
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  4. remove files for clean final repo

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    jcasadogp committed Apr 22, 2023
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  5. Change env name

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    jcasadogp committed Apr 22, 2023
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  6. Add environment set up

    @jcasadogp
    jcasadogp committed Apr 22, 2023
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Commits on Apr 24, 2023

  1. change count records return

    @jcasadogp
    jcasadogp committed Apr 24, 2023
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  2. add try except error in reading yml file

    @jcasadogp
    jcasadogp committed Apr 24, 2023
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  3. add try except error in reading yml file

    @jcasadogp
    jcasadogp committed Apr 24, 2023
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  4. remove error comments

    @jcasadogp
    jcasadogp committed Apr 24, 2023
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  5. add local directory to the yml files

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    jcasadogp committed Apr 24, 2023
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  6. put regex constants on the constants file

    @jcasadogp
    jcasadogp committed Apr 24, 2023
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  7. add more constants

    @jcasadogp
    jcasadogp committed Apr 24, 2023
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  8. remove commands file

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    jcasadogp committed Apr 24, 2023
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  9. create script

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    jcasadogp committed Apr 24, 2023
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  10. put db_field as directory

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    jcasadogp committed Apr 24, 2023
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Commits on Apr 25, 2023

  1. add posibility perturbation is 0

    @jcasadogp
    jcasadogp committed Apr 25, 2023
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  2. error if no parameters are passed to get results file

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    jcasadogp committed Apr 25, 2023
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  3. add posibility perturbation is 0

    @jcasadogp
    jcasadogp committed Apr 25, 2023
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  4. change get records header and add get In Clause

    @jcasadogp
    jcasadogp committed Apr 25, 2023
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  5. final chnages, add zip file

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    jcasadogp committed Apr 25, 2023
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  6. back to commands

    @jcasadogp
    jcasadogp committed Apr 25, 2023
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  7. make experiment table smaller

    @jcasadogp
    jcasadogp committed Apr 25, 2023
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  8. change error in plotting perturbation arguments

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    jcasadogp committed Apr 25, 2023
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  9. change loops order so no error if id_args is empty

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    jcasadogp committed Apr 25, 2023
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  10. change .md for .txt

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    jcasadogp committed Apr 25, 2023
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  11. remove print args

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    jcasadogp committed Apr 25, 2023
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  12. add plate id, row and column to perturbations

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    jcasadogp committed Apr 25, 2023
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  13. remove plate columns in perturbation pretty table

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    jcasadogp committed Apr 25, 2023
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Commits on Apr 27, 2023

  1. add zip file name and final documentation in the function headers

    @jcasadogp
    jcasadogp committed Apr 27, 2023
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  2. add zip file name function

    @jcasadogp
    jcasadogp committed Apr 27, 2023
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  3. change lab analysis file name

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    jcasadogp committed Apr 27, 2023
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  4. change subparsers order

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    jcasadogp committed Apr 27, 2023
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  5. add functions documentation

    @jcasadogp
    jcasadogp committed Apr 27, 2023
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  6. add functions documentation

    @jcasadogp
    jcasadogp committed Apr 27, 2023
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  7. add functions documentation

    @jcasadogp
    jcasadogp committed Apr 27, 2023
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  8. remove bash file with echos

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    jcasadogp committed Apr 27, 2023
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