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Intermediate merge of Aron's stuff #1775

Merged
merged 158 commits into from
Jul 17, 2023
Merged

Intermediate merge of Aron's stuff #1775

merged 158 commits into from
Jul 17, 2023

Commits on May 22, 2023

  1. Add theories 398 397 to theory.db

    @niclaurenti
    niclaurenti committed May 22, 2023
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Commits on May 23, 2023

  1. Name input layer xgrids

    @APJansen
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  2. Rename and simplify dense_me -> neural_network

    @APJansen
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  3. Rename i->i_replica and layer_seed->replica_seed

    @APJansen
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  4. Rename preprocessing -> prefactor

    @APJansen
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  5. Create apply_prefactor layer (can't name yet as it is created twice r… 

    …ather than reused, in the sumrule)
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  6. Merge msr.py into layers/msr_normalization.py

    @APJansen
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  7. Turn msr_impose into class method

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  8. Use MSR_Normalization class attributes

    @APJansen
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  9. Create integration grid in MSR_Normalizations init

    @APJansen
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  10. Renamings

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  11. Prepare call method in MSR_Normalization

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  12. Share more layers, add names

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  13. Create named layers in msr_normalization

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  14. Add pdf_integrated step

    @APJansen
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  15. Move computation of xdivided to init, move integration into call

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  16. remove tempcall

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  17. Fix bug introduced after renaming preprocessing to prefactor

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  18. Join neural network layers into their own NN_i model

    @APJansen
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  19. Clarify layer names

    @APJansen
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  20. Revert all changes to MSR

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  21. Rewrite msr into a model that takes as inputs the pdf, pdf on integra… 

    …tion grid and the integration grid, and outputs normalized pdf
    @APJansen
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  22. Set shape of integration grid to (None, 1) rather than (2000, 1) to d… 

    …isplay shapes in model summary and plot
    @APJansen
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  23. Revert renaming of Preprocessing to Prefactor (now use PreprocessingF… 

    …actor for clarity and consistency)
    @APJansen
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  24. Clean up model creation code

    @APJansen
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  25. Reorganize input options, keeping effect the same

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  26. Make preprocessing layers dependent on which option is used (scaling,… 

    … adding logs)
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  27. Fix msr with scaling

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  28. Fix msr with scaling, shape of integration grid

    @APJansen
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  29. Set shape of x=1 input to None so tensorflow displays proper shapes

    @APJansen
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  30. Merge from master

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Commits on May 25, 2023

  1. Add dummy ph_replica argument to MSR_Normalization layer

    @APJansen
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  2. Factor out scaler into own module scaler.py

    @APJansen
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  3. Do scaling of [0,1] to [-1, 1] inside scaler

    @APJansen
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  4. Replace None layers with identity functions

    @APJansen
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  5. Add option to save model plots (to current directory for now)

    @APJansen
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  6. Add test for xDivide

    @APJansen
    APJansen committed May 25, 2023
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  7. Update xDivide documentation to include v15 in the default settings, … 

    …as the code already did.
    @APJansen
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  8. Simplify xDivide layer

    @APJansen
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  9. Clarify xDivide documentation.

    @APJansen
    APJansen committed May 25, 2023
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  10. Turn off plotting of model for now

    @APJansen
    APJansen committed May 25, 2023
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Commits on May 30, 2023

  1. Merge branch 'master' into model_refactor

    @APJansen
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Commits on May 31, 2023

  1. Manually change regression weights hdf5 file structure to fit new model

    @APJansen
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  2. Manually change developing_weights.h5 file structure to fit new model

    @APJansen
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Commits on Jun 1, 2023

  1. Remove inp option in pdfNN_layer_generator, instead enforcing adding … 

    …of logs if scaler is None.
    @APJansen
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Commits on Jun 2, 2023

  1. Incorporate Juan's comments

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  2. Incorporate Roy's comments

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Commits on Jun 5, 2023

  1. Remove plotting of model from model_trainer

    @APJansen
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  2. Remove unnecessary get_original layer from msr if scaler is not used

    @APJansen
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  3. Add model plot example script to documentation.

    @APJansen
    APJansen committed Jun 5, 2023
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  4. Merge master

    @APJansen
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  5. Apply black to all changed files.

    @APJansen
    APJansen committed Jun 5, 2023
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Commits on Jun 7, 2023

  1. Remove sentence about plotting full model.

    @APJansen
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Commits on Jun 9, 2023

  1. add nf=3 option

    @scarlehoff
    scarlehoff committed Jun 9, 2023
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  2. load only .exportgrid files corresponding to the fit

    @scarlehoff
    scarlehoff committed Jun 9, 2023
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  3. create a separate Q,nf entry when crossing a threshold

    @scarlehoff
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  4. add a default q0 grid for nf0=3 and associated tests

    @scarlehoff
    scarlehoff committed Jun 9, 2023
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Commits on Jun 12, 2023

  1. Merge branch 'master' into QED-tests

    @niclaurenti
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Commits on Jun 13, 2023

  1. Merge branch 'master' into qed-tests

    @niclaurenti
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  2. Add qed test in test_evolven3fit.py

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  3. Add qed test in test_fit

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  4. Add qed test in test_fit 2

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Commits on Jun 14, 2023

  1. Refector QED tests

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  2. Fix test

    @niclaurenti
    niclaurenti committed Jun 14, 2023
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  3. Add fiatlux precision in the runcard

    @niclaurenti
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  4. Rename abs_err -> eps_base

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  5. Remove now unused scatter_to_zero.

    @APJansen
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  6. Use .json from linux machine

    @niclaurenti
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  7. Fix very small bug in interp1d

    @niclaurenti
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Commits on Jun 15, 2023

  1. Download theoryIDs

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Commits on Jun 16, 2023

  1. Add whitelines

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  2. Merge branch 'qed-tests' of github.com:NNPDF/nnpdf into qed-tests

    @niclaurenti
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  3. Load theoryID from fit

    @niclaurenti
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  4. Use test theory in test_compute

    @niclaurenti
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  5. Fix charm mass in test

    @niclaurenti
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  6. speed up photon computation in test

    @niclaurenti
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  7. Fix charm mass in test again

    @niclaurenti
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  8. Fix testing of alpha

    @niclaurenti
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  9. Fix test_compute

    @niclaurenti
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  10. Add test on photon computation

    @niclaurenti
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  11. Remove unused dependencies

    @niclaurenti
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  12. Polish test

    @niclaurenti
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  13. Polish test again

    @niclaurenti
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  14. Pass test theory to test_structurefunctions.py

    @niclaurenti
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  15. Run isort and black on test_structurefunctions.py

    @niclaurenti
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  16. modify the call to generate_block to make it compatible with eko 0.13.5

    @scarlehoff
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  17. Test init parameters of test_structurefunctions.py

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  18. Run isort and black on test_structurefunctions.py

    @niclaurenti
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  19. Use API to install pdfset

    @niclaurenti
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  20. Refactor test_structurefunctions.py and add docstrings

    @niclaurenti
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  21. Small modification

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  22. Use FIATLUX_DEFAULT from photon.compute

    @niclaurenti
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  23. Remove unused import

    @niclaurenti
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  24. Merge branch 'master' into fix_evolven3fit_for_nf=3

    @scarlehoff
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Commits on Jun 19, 2023

  1. Remove variable NNPDF40

    @niclaurenti
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  2. Add comment

    @niclaurenti
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  3. Allow categorical variables in smpdf plots 

    Fix crash in plot_smpdf when the variable in the color axis is
categorical, such as for the W and Z total cross sections. Encode the
categorical variables as integers and use an appropriate color map to
display them.

The implementation feels a bit untidy, with some variables acting at a
distance, but there doesn't seem to be an easy better way considering
that we'd like the color bar to be the same for all figures.

Also, the fact that np.unique sorts the output may not be what we want.
See numpy/numpy#8621. But don't want to make
it more complicated.
    @Zaharid
    Zaharid committed Jun 19, 2023
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  4. Add test and improve variables

    @Zaharid
    Zaharid committed Jun 19, 2023
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  5. Remove figby in atlas total cross section 

    Overall it makes little sense to separate 3 points into 2+1
    @Zaharid
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  6. Improve comments

    @Zaharid
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  7. Typo

    @Zaharid
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  8. Leftover typo

    @Zaharid
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  9. Update test image

    @Zaharid
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  10. Merge pull request #1754 from NNPDF/fix_evolven3fit_for_nf=3 

    Enable nf=3 with `evolven3fit_new`.
    @niclaurenti
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  11. Merge branch 'master' into qed-tests

    @niclaurenti
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  12. Check installation of error pdf in test

    @niclaurenti
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  13. Call black and isort

    @niclaurenti
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  14. Fix last commit

    @niclaurenti
    niclaurenti committed Jun 19, 2023
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  15. Merge pull request #1715 from NNPDF/smpdfcategorical 

    Allow categorical variables in smpdf plots
    @Zaharid
    Zaharid committed Jun 19, 2023
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  16. Merge pull request #1738 from NNPDF/qed-tests 

    QED tests
    @niclaurenti
    niclaurenti committed Jun 19, 2023
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Commits on Jun 20, 2023

  1. Merge branch 'master' into model_refactor

    @APJansen
    APJansen committed Jun 20, 2023
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  2. Pass replica number as additional argument to impose_msr model

    @APJansen
    APJansen committed Jun 20, 2023
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Commits on Jun 21, 2023

  1. First tentative grouping

    @andreab1997
    andreab1997 committed Jun 21, 2023
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Commits on Jun 22, 2023

  1. Add luminosity channels (#1762) 

    * Add luminosity channels

This adds lumi channels corresponding to the main production channels
for W and Z bosons.



---------

Co-authored-by: Juan M. Cruz-Martinez <juacrumar@lairen.eu>
    @Zaharid @scarlehoff
    Zaharid and scarlehoff committed Jun 22, 2023
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  2. Use function to generate fiatlux runcard in tests

    @niclaurenti
    niclaurenti committed Jun 22, 2023
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  3. Call api inside tests

    @niclaurenti
    niclaurenti committed Jun 22, 2023
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  4. Merge pull request #1763 from NNPDF/fix-qed-tests 

    Avoid using resources at the module level
    @scarlehoff
    scarlehoff committed Jun 22, 2023
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Commits on Jun 23, 2023

  1. Replace indexing with tf.gather since ph_replica is now a tensor

    @APJansen
    APJansen committed Jun 23, 2023
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  2. gather -> op_gather

    @APJansen
    APJansen committed Jun 23, 2023
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Commits on Jun 24, 2023

  1. Revert to commit 2b8c806

    @APJansen
    APJansen committed Jun 24, 2023
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  2. Set photon integral as explicit argument to normalization model

    @APJansen
    APJansen committed Jun 24, 2023
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Commits on Jun 25, 2023

  1. Splitting of DY data sets into CC and NC - all data sets tested and w… 

    …orking
    @enocera
    enocera committed Jun 25, 2023
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Commits on Jun 26, 2023

  1. Remove leftover comments

    @andreab1997
    andreab1997 committed Jun 26, 2023
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  2. Remove underscore in group names and add new groups output

    @andreab1997
    andreab1997 committed Jun 26, 2023
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Commits on Jun 27, 2023

  1. Merge branch 'master' into add_new_DY_group

    @andreab1997
    andreab1997 committed Jun 27, 2023
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Commits on Jun 29, 2023

  1. Merge pull request #1760 from NNPDF/add_new_DY_group 

    Separate DY_CC and DY_NC from DY in nnpdf31_process
    @andreab1997
    andreab1997 committed Jun 29, 2023
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  2. Add theory 527 and extend comments in theories 522, 523, 524, 525, 526

    @niclaurenti
    niclaurenti committed Jun 29, 2023
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Commits on Jun 30, 2023

  1. Change the order of the process for the output

    @andreab1997
    andreab1997 committed Jun 30, 2023
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Commits on Jul 3, 2023

  1. Merge pull request #1766 from NNPDF/add-527 

    Add theory 527 and extend comments in theories 522, 523, 524, 525, 526
    @niclaurenti
    niclaurenti committed Jul 3, 2023
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  2. Change also luxset with vp-nextfitruncard

    @niclaurenti
    niclaurenti committed Jul 3, 2023
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  3. Merge pull request #1767 from NNPDF/qed-nextfitruncard 

    Change also luxset with vp-nextfitruncard
    @niclaurenti
    niclaurenti committed Jul 3, 2023
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Commits on Jul 5, 2023

  1. Remove duplicate imports 

    Co-authored-by: Roy Stegeman <roystegeman@live.nl>
    @APJansen @RoyStegeman
    APJansen and RoyStegeman committed Jul 5, 2023
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  2. Remove duplicate imports 

    Co-authored-by: Roy Stegeman <roystegeman@live.nl>
    @APJansen @RoyStegeman
    APJansen and RoyStegeman committed Jul 5, 2023
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  3. Add link to plot_model documentation

    @APJansen
    APJansen committed Jul 5, 2023
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  4. Move photon integrals down to final loop

    @APJansen
    APJansen committed Jul 5, 2023
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  5. Add theoryids for alpha variation but same thcovmat

    @andreab1997
    andreab1997 committed Jul 5, 2023
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  6. Add theory database with new theories

    @andreab1997
    andreab1997 committed Jul 5, 2023
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  7. Merge pull request #1768 from NNPDF/thunc_alphavar 

    Alpha variation but same thcovmat
    @andreab1997
    andreab1997 committed Jul 5, 2023
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  8. Simplify numpy_to_input, removing unused no_reshape and setting gridp… 

    …oints to None in shape always
    @APJansen
    APJansen committed Jul 5, 2023
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Commits on Jul 6, 2023

  1. Merge branch 'master' into model_refactor

    @APJansen
    APJansen committed Jul 6, 2023
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Commits on Jul 7, 2023

  1. Improve numpy_to_input documentation

    @APJansen
    APJansen committed Jul 7, 2023
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Commits on Jul 10, 2023

  1. remove mention that vp-comparefit doesn't always have to be the first… 

    … step
    @RoyStegeman
    RoyStegeman committed Jul 10, 2023
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  2. Implement FkRotation as subclass of Rotation by rewriting using a rot… 

    …ation tensor
    @APJansen
    APJansen committed Jul 10, 2023
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  3. Change 8 to 9 in docstring

    @APJansen
    APJansen committed Jul 10, 2023
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  4. Apply black and isort to all affected files

    @APJansen
    APJansen committed Jul 10, 2023
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  5. Merge pull request #1771 from NNPDF/update_fitting_docs 

    remove mention that vp-setupfit doesn't always have to be the first step
    @RoyStegeman
    RoyStegeman committed Jul 10, 2023
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  6. Update n3fit/src/n3fit/backends/keras_backend/operations.py 

    formatting

Co-authored-by: Juan M. Cruz-Martinez <juacrumar@lairen.eu>
    @APJansen @scarlehoff
    APJansen and scarlehoff committed Jul 10, 2023
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  7. Restore comments in scaler

    @APJansen
    APJansen committed Jul 10, 2023
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  8. Merge pull request #1772 from NNPDF/rotation_matrix 

    Implement FkRotation as subclass of Rotation by rewriting using a rotation tensor
    @APJansen
    APJansen committed Jul 10, 2023
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Commits on Jul 12, 2023

  1. Add Optional type hint for arguments that can be None

    @APJansen
    APJansen committed Jul 12, 2023
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  2. Use numpy.typing

    @APJansen
    APJansen committed Jul 12, 2023
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  3. Raise error from original error

    @APJansen
    APJansen committed Jul 12, 2023
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  4. Fix error when not imposing sumrule

    @APJansen
    APJansen committed Jul 12, 2023
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  5. Fix consistency of lumy plot label 

    Make the absolute value bars both double.
    @Zaharid
    Zaharid committed Jul 12, 2023
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Commits on Jul 13, 2023

  1. Change fiatlux_dis_F{2,L} -> FIATLUX_DIS_F{2,L}

    @niclaurenti
    niclaurenti committed Jul 13, 2023
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  2. Merge pull request #1774 from NNPDF/rename_fiatlux_dis 

    Change fiatlux_dis_F{2,L} -> FIATLUX_DIS_F{2,L}
    @niclaurenti
    niclaurenti committed Jul 13, 2023
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  3. Merge branch 'master' into model_refactor

    @APJansen
    APJansen committed Jul 13, 2023
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Commits on Jul 14, 2023

  1. Merge pull request #1734 from NNPDF/model_refactor 

    Refactoring model creation code
    @APJansen
    APJansen committed Jul 14, 2023
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