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OSCEM metadata#38

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lolasanchezzz wants to merge 94 commits intodevelscipion-em/scipion-em-facilities:develfrom LS_OSCEMscipion-em/scipion-em-facilities:LS_OSCEMCopy head branch name to clipboard

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Commits

Commits on Jul 5, 2024

• Initial step

  lolasanchezzz

  committed
  b153a90

Commits on Jul 9, 2024

• First part of json generation implemented

  lolasanchezzz

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  2b51262

• First part of json generation implemented

  lolasanchezzz

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  cfd749c

Commits on Jul 10, 2024

• Test and protocol refinement

  lolasanchezzz

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  81c2816

Commits on Jul 12, 2024

• Completing test functions

  lolasanchezzz

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  5b7554f

Commits on Jul 16, 2024

• Completing 6 test functions for protocol

  lolasanchezzz

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  0d98a68

• Correcting errors in names

  lolasanchezzz

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  7a4658c

Commits on Jul 17, 2024

• Adding histograms generation

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  d108c36

• Modifying histograms generation

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  5bfa866

• Addition of particle picking section in json

  lolasanchezzz

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  1fa64d6

Commits on Jul 19, 2024

• Addition of Set of particles section and test

  lolasanchezzz

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  7ed67be

• Addition of setof2Dclasses to protocol

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  5b67045

• Addition of setof2Dclasses to test

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  c9aa4ff

Commits on Jul 22, 2024

• Updating workflow until setofparticles

  lolasanchezzz

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  37695ef

Commits on Jul 23, 2024

• Extending test to initial volume generation

  lolasanchezzz

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  301199d

• Extending protocol to 3D classes generation

  lolasanchezzz

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  958973c

• Correcting error in runAlignVol()

  lolasanchezzz

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  8651db9

Commits on Jul 24, 2024

• Reducing test workflow

  lolasanchezzz

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  c5201af

Commits on Jul 29, 2024

• Solving particle histogram error

  lolasanchezzz

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  02187ff

• Re-doing histograms

  lolasanchezzz

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  53c3e98

• Reducing number of tests

  lolasanchezzz

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  778859f

• new test_data

  lolasanchezzz

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  a0c1700

Commits on Jul 31, 2024

• Finished Classes 2D part

  lolasanchezzz

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  18c7f51

• Updated Classes 2D part

  lolasanchezzz

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  670a122

Commits on Aug 1, 2024

• Adding initial volume generation part

  lolasanchezzz

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  e66e645

• Adding classes 3D generation part

  lolasanchezzz

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  5a87fb9

Commits on Aug 2, 2024

• Adding another option for classes 3D generation

  lolasanchezzz

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  bd5ddcf

• Adding initial volume and final test data

  lolasanchezzz

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  cca114e

Commits on Aug 21, 2024

• Adding units and rounding decimals

  lolasanchezzz

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  f6e823e

• Adding units to test

  lolasanchezzz

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  1158e94

Commits on Aug 22, 2024

• Adding units protocol and adding properties in import movies

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  1c7c750

• Adding histogram for shifts

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  dd6dd92

• Adding getting number of particles

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  b87dc91

• modifying test data

  lolasanchezzz

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  3789f06

Commits on Aug 23, 2024

• modifying for gain image

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  f082ce5

• changes in protocol, test and file names

  lolasanchezzz

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  fdfa374

Commits on Aug 26, 2024

• Minor adjustments and unit changes

  lolasanchezzz

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  a0cd478

Commits on Sep 2, 2024

• Shift histogram adjustment

  lolasanchezzz

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  559ce7e

Commits on Sep 4, 2024

• classes3D help and volume squeeze

  lolasanchezzz

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  11645d6

Commits on Sep 10, 2024

• change in protocol name

  lolasanchezzz

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  ead7610

• update changes.txt

  lolasanchezzz

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  57727d7

• update version

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  82380aa

• update genereateChimeraView function

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  d7b25d8

• update max_shift function

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  d9e6eeb

• update import_movies function

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  2229692

• add ylabel of histograms as variable

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  8eeb9f4

• add function to generate isosurfaces

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  5f8a35b

• add function for CTF comparison part

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  0506441

• update to reduce duplications

  lolasanchezzz

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  3e54a85

• function to launch protocol and load json

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  f1e7211

Commits on Sep 11, 2024

• add condition for particles per class

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  8b73d04

Commits on Sep 20, 2024

• creating micrographs examples for defocus and particles

  lolasanchezzz

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  60abb97

• solve error in input of protocol

  lolasanchezzz

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  7ff554f

Commits on Sep 23, 2024

• change .png by .jpg

  lolasanchezzz

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  b136431

Commits on Sep 26, 2024

• update in the creation of example micrographs

  lolasanchezzz

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  5f3cea2

Commits on Sep 27, 2024

• update comments in particle picking

  lolasanchezzz

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  9d49816

• updated comments in particle picking

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  53a793a

Commits on Oct 11, 2024

• change amplitude contrast to ctf_estimation section

  lolasanchezzz

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  4dfd8ab

• change to value-unit system in import movies section

  lolasanchezzz

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  5f0366f

• change to value-unit system in movie alignment section

  lolasanchezzz

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  eff4a78

• remove commented code in movie alignment

  lolasanchezzz

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  0a0fe95

• change to value-unit system in max shift section

  lolasanchezzz

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  c1d8143

• change to value-unit system in CTF estimation section

  lolasanchezzz

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  ab0ada0

Commits on Oct 15, 2024

• update test for value-unit system

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  56e0ad7

Commits on Oct 16, 2024

• update import movies removing repeated properties in schemas

  lolasanchezzz

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  4cc5957

Commits on Nov 20, 2024

• json to yaml

  lolasanchezzz

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  f45b413

• update to new movies format

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  a0b9117

• update to new classes 2D format

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  1076a4d

• update to new classes 3D format

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  5920597

Commits on Nov 21, 2024

• update to new volume format

  lolasanchezzz

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  cead1d6

• add micrographs section

  lolasanchezzz

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  25a21c8

Commits on Nov 22, 2024

• update to accept multiple volumes as input

  lolasanchezzz

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  46f866f

Commits on Nov 25, 2024

• update to retrieve particles number in volumes

  lolasanchezzz

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  e0e8b43

• solve misspellings

  lolasanchezzz

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  3340b82

Commits on Nov 26, 2024

• add pyyaml in requirements.txt

  lolasanchezzz

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  5f1bc8f

• update in particles num for volumes

  lolasanchezzz

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  8b37f98

Commits on Nov 27, 2024

• update in classes and slots format

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  cd0ba35

• add resolution to volume

  lolasanchezzz

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  39bfb64

Commits on Nov 28, 2024

• minor changes for micro examples image

  lolasanchezzz

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  d1e7569

• change enhanced by sharpened

  lolasanchezzz

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  16e768e

Commits on Dec 3, 2024

• update resolution calculation

  lolasanchezzz

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  3612991

Commits on Dec 10, 2024

• update test data and lower cases

  lolasanchezzz

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  8ab7ca4

• update resolution calculation

  lolasanchezzz

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  d694bf6

• working tests with yaml input

  lolasanchezzz

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  6c6f956

Commits on Dec 11, 2024

• change to lower case

  lolasanchezzz

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  638ab9a

• update min-max resolution

  lolasanchezzz

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  97a5585

• Clean up: Remove unnecessary comments and commented-out code

  lolasanchezzz

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  2d9e9c2

Commits on Dec 12, 2024

• change volumes input order

  lolasanchezzz

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  7491dbb

• updated workflow

  lolasanchezzz

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  4d2ab0b

• clean up of commented code

  lolasanchezzz

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  b6c5b5c

Commits on Dec 16, 2024

• add summary with metadata file path

  lolasanchezzz

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  f5e69a0

• update function names removing 'json'

  lolasanchezzz

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  2daf30c

• included resolution unit in volumes

  lolasanchezzz

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  b96b3ab

Commits on Dec 19, 2024

• solved error with micrograph number

  lolasanchezzz

  committed
  d2325a6