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https://github.com/scinote-eln/scinote-web.git
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Fix smart annotations in demo project
Closes SCI-3097, SCI-3102.
This commit is contained in:
Jure Grabnar
parent
2464a45f83
commit
30bc536d07
1 changed files with 77 additions and 28 deletions
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@ -1,4 +1,7 @@
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module FirstTimeDataGenerator
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# Default inventory repository
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REPO_SAMPLES_NAME = 'Samples'.freeze
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# Create data for demo for new users
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def seed_demo_data(user, team, asset_queue = :demo)
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@user = user
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@ -8,28 +11,49 @@ module FirstTimeDataGenerator
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# Do nothing
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return unless team
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# create custom repository samples
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repository = Repository.create(
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name: 'Samples',
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team: team,
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created_by: user
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)
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# check if samples repo already exist, then create custom repository samples
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repository = Repository.where(team: team).where(name: REPO_SAMPLES_NAME)
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repository =
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if repository.blank?
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if team.repositories.count < Rails.configuration.x.repositories_limit
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Repository.create(
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name: REPO_SAMPLES_NAME,
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team: team,
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created_by: user
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)
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else
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# User first repo just as a placeholder, this call will fail anyhow
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Repository.create(
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name: team.repositories.first.name,
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team: team,
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created_by: user
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)
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end
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else
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repository.first
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end
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# create list value column for sample types
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repository_column_sample_types = RepositoryColumn.create(
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repository: repository,
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created_by: user,
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data_type: :RepositoryListValue,
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name: 'Sample Types'
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)
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repo_columns = []
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['Sample Types', 'Sample Groups'].each do |repo_name|
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repo_column = repository.repository_columns.where(name: repo_name)
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# create list value column for sample groups
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repository_column_sample_groups = RepositoryColumn.create(
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repository: repository,
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created_by: user,
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data_type: :RepositoryListValue,
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name: 'Sample Groups'
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)
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repo_columns <<
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if repo_column.blank?
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RepositoryColumn.create(
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repository: repository,
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created_by: user,
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data_type: :RepositoryListValue,
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name: repo_name
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)
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else
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repo_column.first
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end
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end
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# Maintain old names
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repository_column_sample_types, repository_column_sample_groups =
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repo_columns
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# create few list items for sample types
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repository_items_sample_types = []
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@ -41,7 +65,15 @@ module FirstTimeDataGenerator
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repository_column: repository_column_sample_types,
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repository: repository
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)
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repository_items_sample_types << item
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# Check if it already exists
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if item.persisted?
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repository_items_sample_types << item
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else
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repository_items_sample_types << repository_column_sample_types
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.repository_list_items
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.where(data: name).first
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end
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end
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# create few list items for sample groups
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@ -54,7 +86,15 @@ module FirstTimeDataGenerator
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repository_column: repository_column_sample_groups,
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repository: repository
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)
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repository_items_sample_groups << item
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# Check if it already exists
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if item.persisted?
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repository_items_sample_groups << item
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else
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repository_items_sample_groups << repository_column_sample_groups
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.repository_list_items
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.where(data: name).first
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end
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end
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repository_rows_to_assign = []
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@ -585,19 +625,22 @@ module FirstTimeDataGenerator
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'Collection of potatoes'
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]
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second_rep_item = smart_annotate_rep_item(repository_rows_to_assign.second)
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third_rep_item = smart_annotate_rep_item(repository_rows_to_assign.third)
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fifth_rep_item = smart_annotate_rep_item(repository_rows_to_assign.fifth)
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module_step_descriptions = [
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'<html>
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<body>
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<p>50% of samples should be mock inoculated
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<span class=\"atwho-inserted\"contenteditable=\"false\"
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data-atwho-at-query=\"#\">[#' + sample_name + '3~rep_item~3]</span>
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data-atwho-at-query=\"#\">[#' + third_rep_item + ']</span>
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<span class=\"atwho-inserted\" contenteditable=\"false\"
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data-atwho-at-query=\"#\">[#' + sample_name + '5~rep_item~5]</span>
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data-atwho-at-query=\"#\">[#' + fifth_rep_item + ']</span>
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while other 50% with PVY NTN virus
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<span class=\"atwho-inserted\" contenteditable=\"false\"
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data-atwho-at-query=\"#\">[#' + sample_name + '3~rep_item~3]</span>
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data-atwho-at-query=\"#\">[#' + third_rep_item + ']</span>
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<span class=\"atwho-inserted\" contenteditable=\"false\"
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data-atwho-at-query=\"#\">[#' + sample_name + '5~rep_item~5]</span>.
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data-atwho-at-query=\"#\">[#' + fifth_rep_item + ']</span>.
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</p>
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</body>
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</html>',
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@ -611,6 +654,9 @@ module FirstTimeDataGenerator
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module_step_names,
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module_step_descriptions)
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# Delete repository items, if we went over the limit
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repository_rows_to_assign.map(&:destroy) unless repository.id
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# Add table to existig step
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step = my_modules[1].protocol.steps.where('position = 0').take
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Table.create(
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@ -627,12 +673,11 @@ module FirstTimeDataGenerator
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file_name: 'PVY-inoculated_plant_symptoms.JPG'
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)
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# Add comment to step 1
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user_annotation = '[@' + user.name + '~' + user.id.to_s + ']'
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user_annotation = user.name
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generate_step_comment(
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step,
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user,
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user_annotation + ' I have used different sample [#' + sample_name +
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'2~rep_item~2]'
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"#{user_annotation} I have used different sample [##{second_rep_item}]"
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)
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# Add comment to step 3
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step = my_modules[1].protocol.steps.where('position = 2').take
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@ -1666,4 +1711,8 @@ module FirstTimeDataGenerator
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step_name: step.name)
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).sneaky_save
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end
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def smart_annotate_rep_item(item)
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"#{item.name}~rep_item~#{Base62.encode(item.id)}"
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end
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end
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