mirror of
https://github.com/scinote-eln/scinote-web.git
synced 2024-11-14 05:05:55 +08:00
1223 lines
36 KiB
Ruby
1223 lines
36 KiB
Ruby
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class ProtocolsController < ApplicationController
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include RenamingUtil
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include ProtocolsImporter
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include ProtocolsExporter
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include ActionView::Helpers::TextHelper
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include ActionView::Helpers::UrlHelper
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include ApplicationHelper
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include InputSanitizeHelper
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include ProtocolsIoHelper
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include TeamsHelper
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include CommentHelper
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before_action :check_create_permissions, only: %i(
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create_new_modal
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create
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)
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before_action :check_clone_permissions, only: [:clone]
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before_action :check_view_permissions, only: %i(
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protocol_status_bar
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updated_at_label
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preview
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linked_children
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linked_children_datatable
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)
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before_action :switch_team_with_param, only: :index
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before_action :check_view_all_permissions, only: %i(
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index
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datatable
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)
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# For update_from_parent and update_from_parent_modal we don't need to check
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# read permission for the parent protocol
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before_action :check_manage_permissions, only: %i(
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edit
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update_keywords
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update_description
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update_name
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update_authors
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edit_name_modal
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edit_keywords_modal
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edit_authors_modal
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edit_description_modal
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unlink
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unlink_modal
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revert
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revert_modal
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update_from_parent
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update_from_parent_modal
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)
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before_action :check_manage_parent_in_repository_permissions, only: %i(
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update_parent
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update_parent_modal
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)
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before_action :check_manage_all_in_repository_permissions, only:
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%i(make_private publish archive)
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before_action :check_restore_all_in_repository_permissions, only: :restore
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before_action :check_load_from_repository_views_permissions, only: %i(
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load_from_repository_modal
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load_from_repository_datatable
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)
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before_action :check_load_from_repository_permissions, only: [
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:load_from_repository
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]
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before_action :check_load_from_file_permissions, only: [
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:load_from_file
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]
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before_action :check_copy_to_repository_permissions, only: %i(
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copy_to_repository
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copy_to_repository_modal
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)
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before_action :check_import_permissions, only: :import
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before_action :check_export_permissions, only: :export
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before_action :check_protocolsio_import_permissions,
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only: %i(protocolsio_import_create protocolsio_import_save)
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def index; end
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def datatable
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respond_to do |format|
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format.json do
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render json: ::ProtocolsDatatable.new(
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view_context,
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@current_team,
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@type,
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current_user
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)
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end
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end
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end
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def preview
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respond_to do |format|
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format.json do
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render json: {
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title: I18n.t('protocols.index.preview.title',
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protocol: escape_input(@protocol.name)),
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html: render_to_string(
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partial: 'protocols/index/protocol_preview_modal_body.html.erb',
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locals: { protocol: @protocol }
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),
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footer: render_to_string(
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partial: 'protocols/index/protocol_preview_modal_footer.html.erb',
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locals: { protocol: @protocol }
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)
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}
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end
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end
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end
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def print
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@protocol = Protocol.find(params[:id])
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render_403 && return unless @protocol.my_module.blank? || can_read_protocol_in_module?(@protocol)
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render layout: 'protocols/print'
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end
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def linked_children
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respond_to do |format|
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format.json do
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render json: {
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title: I18n.t('protocols.index.linked_children.title',
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protocol: escape_input(@protocol.name)),
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html: render_to_string(partial: 'protocols/index/linked_children_modal_body.html.erb',
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locals: { protocol: @protocol })
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}
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end
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end
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end
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def linked_children_datatable
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respond_to do |format|
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format.json do
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render json: ::ProtocolLinkedChildrenDatatable.new(
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view_context,
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@protocol,
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current_user,
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self
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)
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end
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end
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end
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def make_private
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move_protocol('make_private')
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end
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def publish
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move_protocol('publish')
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end
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def archive
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move_protocol('archive')
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end
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def restore
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move_protocol('restore')
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end
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def edit
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# Switch to correct team
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current_team_switch(@protocol.team)
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end
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def update_keywords
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respond_to do |format|
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# sanitize user input
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if params[:keywords]
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params[:keywords].collect! do |keyword|
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escape_input(keyword)
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end
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end
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if @protocol.update_keywords(params[:keywords])
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format.json do
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log_activity(:edit_keywords_in_protocol_repository, nil, protocol: @protocol.id)
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render json: { status: :ok }
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end
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else
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format.json { render json: {}, status: :unprocessable_entity }
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end
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end
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end
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def update_authors
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if @protocol.update(authors: params.require(:protocol)[:authors])
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log_activity(:edit_authors_in_protocol_repository, nil, protocol: @protocol.id)
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render json: {}, status: :ok
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else
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render json: @protocol.errors, status: :unprocessable_entity
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end
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end
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def update_name
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if @protocol.update(name: params.require(:protocol)[:name])
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render json: {}, status: :ok
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else
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render json: @protocol.errors, status: :unprocessable_entity
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end
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end
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def update_description
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old_description = @protocol.description
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respond_to do |format|
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format.json do
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if @protocol.update(description: params.require(:protocol)[:description])
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log_activity(:edit_description_in_protocol_repository, nil, protocol: @protocol.id)
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TinyMceAsset.update_images(@protocol, params[:tiny_mce_images], current_user)
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protocol_annotation_notification(old_description)
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render json: {
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html: custom_auto_link(
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@protocol.tinymce_render(:description),
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simple_format: false,
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tags: %w(img),
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team: current_team)
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}
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else
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render json: @protocol.errors, status: :unprocessable_entity
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end
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end
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end
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end
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def create
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@protocol = Protocol.new(
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team: @current_team,
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protocol_type: Protocol.protocol_types[@type == :public ? :in_repository_public : :in_repository_private],
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added_by: current_user
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)
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@protocol.assign_attributes(create_params)
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ts = Time.now
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@protocol.record_timestamps = false
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@protocol.created_at = ts
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@protocol.updated_at = ts
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@protocol.published_on = ts if @type == :public
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respond_to do |format|
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if @protocol.save
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log_activity(:create_protocol_in_repository, nil, protocol: @protocol.id)
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TinyMceAsset.update_images(@protocol, params[:tiny_mce_images], current_user)
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format.json do
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render json: {
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url: edit_protocol_path(
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@protocol,
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team: @current_team,
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type: @type
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)
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}
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end
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else
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format.json do
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render json: @protocol.errors,
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status: :unprocessable_entity
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end
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end
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end
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end
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def clone
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cloned = nil
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Protocol.transaction do
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begin
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cloned = @original.deep_clone_repository(current_user)
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rescue Exception
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raise ActiveRecord:: Rollback
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end
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end
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respond_to do |format|
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if !cloned.nil?
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flash[:success] = t(
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'protocols.index.clone.success_flash',
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original: @original.name,
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new: cloned.name
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)
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flash.keep(:success)
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format.json { render json: {}, status: :ok }
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else
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flash[:error] = t(
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'protocols.index.clone.error_flash',
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original: @original.name
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)
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flash.keep(:error)
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format.json { render json: {}, status: :bad_request }
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end
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end
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end
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def copy_to_repository
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link_protocols = params[:link] &&
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can_manage_protocol_in_module?(@protocol) &&
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can_create_protocols_in_repository?(@protocol.team)
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respond_to do |format|
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transaction_error = false
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Protocol.transaction do
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@new = @protocol.copy_to_repository(
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copy_to_repository_params[:name],
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copy_to_repository_params[:protocol_type],
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link_protocols,
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current_user
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)
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rescue StandardError
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transaction_error = true
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raise ActiveRecord:: Rollback
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end
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if transaction_error
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# Bad request error
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format.json do
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render json: {
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message: t('my_modules.protocols.copy_to_repository_modal.error_400')
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},
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status: :bad_request
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end
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elsif @new.invalid?
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# Render errors
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format.json do
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render json: @new.errors,
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status: :unprocessable_entity
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end
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else
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# Everything good, render 200
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format.json { render json: { refresh: link_protocols }, status: :ok }
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end
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end
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end
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def unlink
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respond_to do |format|
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transaction_error = false
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Protocol.transaction do
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begin
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@protocol.unlink
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rescue Exception
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transaction_error = true
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raise ActiveRecord::Rollback
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end
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end
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if transaction_error
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# Bad request error
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format.json do
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render json: {
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message: t('my_modules.protocols.unlink_error')
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},
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status: :bad_request
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end
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else
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# Everything good, display flash & render 200
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flash[:success] = t(
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'my_modules.protocols.unlink_flash'
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)
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flash.keep(:success)
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format.json { render json: {}, status: :ok }
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end
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end
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end
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def revert
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respond_to do |format|
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if @protocol.can_destroy?
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transaction_error = false
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Protocol.transaction do
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# Revert is basically update from parent
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@protocol.update_from_parent(current_user)
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rescue StandardError
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transaction_error = true
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raise ActiveRecord::Rollback
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end
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if transaction_error
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# Bad request error
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format.json do
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render json: {
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message: t('my_modules.protocols.revert_error')
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},
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status: :bad_request
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end
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else
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# Everything good, display flash & render 200
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log_activity(:update_protocol_in_task_from_repository,
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@protocol.my_module.experiment.project,
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my_module: @protocol.my_module.id,
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protocol_repository: @protocol.parent.id)
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flash[:success] = t(
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'my_modules.protocols.revert_flash'
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)
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flash.keep(:success)
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format.json { render json: {}, status: :ok }
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end
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else
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format.json do
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render json: {
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message: t('my_modules.protocols.revert_error_locked')
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}, status: :bad_request
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end
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end
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end
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end
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def update_parent
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respond_to do |format|
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if @protocol.parent.can_destroy?
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transaction_error = false
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Protocol.transaction do
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@protocol.update_parent(current_user)
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rescue StandardError
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transaction_error = true
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raise ActiveRecord::Rollback
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end
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if transaction_error
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# Bad request error
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format.json do
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render json: {
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message: t('my_modules.protocols.update_parent_error')
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},
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status: :bad_request
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end
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else
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# Everything good, record activity, display flash & render 200
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log_activity(:update_protocol_in_repository_from_task,
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@protocol.my_module.experiment.project,
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my_module: @protocol.my_module.id,
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protocol_repository: @protocol.parent.id)
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flash[:success] = t(
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'my_modules.protocols.update_parent_flash'
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)
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flash.keep(:success)
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format.json { render json: {}, status: :ok }
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end
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else
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format.json do
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render json: {
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message: t('my_modules.protocols.update_parent_error_locked')
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}, status: :bad_request
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end
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end
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end
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end
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def update_from_parent
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respond_to do |format|
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if @protocol.can_destroy?
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transaction_error = false
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Protocol.transaction do
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@protocol.update_from_parent(current_user)
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rescue StandardError
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transaction_error = true
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raise ActiveRecord::Rollback
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end
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if transaction_error
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# Bad request error
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format.json do
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render json: {
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message: t('my_modules.protocols.update_from_parent_error')
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},
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status: :bad_request
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end
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else
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# Everything good, display flash & render 200
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log_activity(:update_protocol_in_task_from_repository,
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@protocol.my_module.experiment.project,
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my_module: @protocol.my_module.id,
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protocol_repository: @protocol.parent.id)
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flash[:success] = t(
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'my_modules.protocols.update_from_parent_flash'
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)
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flash.keep(:success)
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format.json { render json: {}, status: :ok }
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end
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else
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format.json do
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render json: {
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message: t('my_modules.protocols.update_from_parent_error_locked')
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}, status: :bad_request
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end
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end
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end
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end
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def load_from_repository
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respond_to do |format|
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if @protocol.can_destroy?
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transaction_error = false
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Protocol.transaction do
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@protocol.load_from_repository(@source, current_user)
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rescue StandardError
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transaction_error = true
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raise ActiveRecord::Rollback
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end
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|
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if transaction_error
|
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# Bad request error
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format.json do
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render json: {
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message: t('my_modules.protocols.load_from_repository_error')
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},
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status: :bad_request
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end
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else
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# Everything good, record activity, display flash & render 200
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log_activity(:load_protocol_to_task_from_repository,
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@protocol.my_module.experiment.project,
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my_module: @protocol.my_module.id,
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protocol_repository: @protocol.parent.id)
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flash[:success] = t('my_modules.protocols.load_from_repository_flash')
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flash.keep(:success)
|
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format.json { render json: {}, status: :ok }
|
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end
|
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else
|
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format.json do
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render json: {
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message: t('my_modules.protocols.load_from_repository_error_locked')
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}, status: :bad_request
|
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end
|
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end
|
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end
|
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end
|
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|
|
def load_from_file
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# This is actually very similar to import
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respond_to do |format|
|
|
if @protocol.can_destroy?
|
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transaction_error = false
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Protocol.transaction do
|
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begin
|
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import_into_existing(
|
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@protocol, @protocol_json, current_user, current_team
|
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)
|
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rescue Exception
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transaction_error = true
|
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raise ActiveRecord:: Rollback
|
|
end
|
|
end
|
|
|
|
if transaction_error
|
|
format.json do
|
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render json: { status: :error }, status: :bad_request
|
|
end
|
|
else
|
|
# Everything good, record activity, display flash & render 200
|
|
log_activity(:load_protocol_to_task_from_file,
|
|
@protocol.my_module.experiment.project,
|
|
my_module: @my_module.id)
|
|
flash[:success] = t(
|
|
'my_modules.protocols.load_from_file_flash'
|
|
)
|
|
flash.keep(:success)
|
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format.json do
|
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render json: { status: :ok }, status: :ok
|
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end
|
|
end
|
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else
|
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format.json do
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render json: { status: :locked }, status: :bad_request
|
|
end
|
|
end
|
|
end
|
|
end
|
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|
|
def import
|
|
protocol = nil
|
|
respond_to do |format|
|
|
transaction_error = false
|
|
Protocol.transaction do
|
|
begin
|
|
protocol =
|
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import_new_protocol(@protocol_json, @team, @type, current_user)
|
|
rescue StandardError => ex
|
|
Rails.logger.error ex.message
|
|
transaction_error = true
|
|
raise ActiveRecord:: Rollback
|
|
end
|
|
end
|
|
|
|
p_name =
|
|
if @protocol_json['name'].present?
|
|
escape_input(@protocol_json['name'])
|
|
else
|
|
t('protocols.index.no_protocol_name')
|
|
end
|
|
if transaction_error
|
|
format.json do
|
|
render json: { name: p_name, status: :bad_request }, status: :bad_request
|
|
end
|
|
else
|
|
Activities::CreateActivityService
|
|
.call(activity_type: :import_protocol_in_repository,
|
|
owner: current_user,
|
|
subject: protocol,
|
|
team: current_team,
|
|
message_items: {
|
|
protocol: protocol.id
|
|
})
|
|
|
|
format.json do
|
|
render json: {
|
|
name: escape_input(p_name), new_name: escape_input(protocol.name), status: :ok
|
|
},
|
|
status: :ok
|
|
end
|
|
end
|
|
end
|
|
end
|
|
|
|
def protocolsio_import_create
|
|
@protocolsio_too_big = false
|
|
@protocolsio_invalid_file = false
|
|
@protocolsio_no_file = false
|
|
if params[:json_file].nil?
|
|
@protocolsio_no_file = true
|
|
respond_to do |format|
|
|
format.js {}
|
|
end
|
|
return 0 # return 0 stops the rest of the controller code from executing
|
|
end
|
|
extension = File.extname(params[:json_file].path)
|
|
file_size = File.size(params[:json_file].path)
|
|
if extension != '.txt' && extension != '.json'
|
|
@protocolsio_invalid_file = true
|
|
|
|
respond_to do |format|
|
|
format.js {}
|
|
end
|
|
return 0 # return 0 stops the rest of the controller code from executing
|
|
end
|
|
if file_size > Rails.configuration.x.file_max_size_mb.megabytes
|
|
@protocolsio_too_big = true
|
|
respond_to do |format|
|
|
format.js {}
|
|
# if file is too big, default to the js.erb file,
|
|
# named the same as this controller
|
|
# where a javascript alert is called
|
|
end
|
|
return 0 # return 0 stops the rest of the controller code from executing
|
|
end
|
|
json_file_contents = File.read(params[:json_file].path)
|
|
json_file_contents.gsub! '\"', "'"
|
|
# escaped double quotes too stressfull, html works with single quotes too
|
|
# json double quotes dont get escaped since they dont match \"
|
|
unless valid_protocol_json(json_file_contents)
|
|
@protocolsio_invalid_file = true
|
|
respond_to do |format|
|
|
format.js {}
|
|
end
|
|
return 0 # return 0 stops the rest of the controller code from executing
|
|
end
|
|
@json_object = JSON.parse(json_file_contents)
|
|
unless step_hash_null?(@json_object['steps'])
|
|
@json_object['steps'] = protocols_io_guid_reorder_step_json(
|
|
@json_object['steps']
|
|
)
|
|
end
|
|
@protocol = Protocol.new
|
|
respond_to do |format|
|
|
format.js {} # go to the js.erb file named the same as this controller,
|
|
# where a preview modal is rendered,
|
|
# and some modals get closed and opened
|
|
end
|
|
rescue StandardError => e
|
|
Rails.logger.error(e.message)
|
|
@protocolsio_general_error = true
|
|
respond_to do |format|
|
|
format.js {}
|
|
end
|
|
end
|
|
|
|
def protocolsio_import_save
|
|
@json_object = JSON.parse(params['json_object'])
|
|
@db_json = {}
|
|
@toolong = false
|
|
@db_json['name'] = pio_eval_title_len(
|
|
sanitize_input(not_null(params['protocol']['name']))
|
|
)
|
|
# since scinote only has description field, and protocols.io has many others
|
|
# ,here i am putting everything important from protocols.io into description
|
|
@db_json['authors'] = pio_eval_title_len(
|
|
sanitize_input(not_null(params['protocol']['authors']))
|
|
)
|
|
@db_json['created_at'] = pio_eval_title_len(
|
|
sanitize_input(not_null(params['protocol']['created_at']))
|
|
)
|
|
@db_json['updated_at'] = pio_eval_title_len(
|
|
sanitize_input(not_null(params['protocol']['last_modified']))
|
|
)
|
|
@db_json['steps'] = {}
|
|
|
|
unless step_hash_null?(@json_object['steps'])
|
|
@db_json['steps'] = protocols_io_fill_step(
|
|
@json_object, @db_json['steps']
|
|
)
|
|
end
|
|
protocol = nil
|
|
respond_to do |format|
|
|
transaction_error = false
|
|
@protocolsio_general_error = false
|
|
Protocol.transaction do
|
|
begin
|
|
protocol = import_new_protocol(
|
|
@db_json, current_team, params[:type].to_sym, current_user
|
|
)
|
|
rescue Exception
|
|
transaction_error = true
|
|
raise ActiveRecord:: Rollback
|
|
end
|
|
end
|
|
p_name =
|
|
if @db_json['name'].present?
|
|
escape_input(@db_json['name'])
|
|
else
|
|
t('protocols.index.no_protocol_name')
|
|
end
|
|
if transaction_error
|
|
@protocolsio_general_error = true
|
|
# General something went wrong, upload to db failed error
|
|
# format.json {
|
|
# render json: { name: p_name, status: :bad_request },
|
|
# status: :bad_request
|
|
# }
|
|
else
|
|
@protocolsio_general_error = false
|
|
format.json do
|
|
render json:
|
|
{ name: @db_json['name'], new_name: @db_json['name'], status: :ok },
|
|
status: :ok
|
|
end
|
|
end
|
|
format.js {}
|
|
end
|
|
end
|
|
|
|
def export
|
|
# Make a zip output stream and send it to the client
|
|
respond_to do |format|
|
|
format.html do
|
|
z_output_stream = Zip::OutputStream.write_buffer do |ostream|
|
|
ostream.put_next_entry('scinote.xml')
|
|
ostream.print(generate_envelope_xml(@protocols))
|
|
ostream.put_next_entry('scinote.xsd')
|
|
ostream.print(generate_envelope_xsd)
|
|
ostream.put_next_entry('eln.xsd')
|
|
ostream.print(generate_eln_xsd)
|
|
|
|
# Create folder and xml file for each protocol and populate it
|
|
@protocols.each do |protocol|
|
|
protocol_dir = get_guid(protocol.id).to_s
|
|
ostream.put_next_entry("#{protocol_dir}/eln.xml")
|
|
ostream.print(generate_protocol_xml(protocol))
|
|
ostream = protocol.tiny_mce_assets.save_to_eln(ostream, protocol_dir)
|
|
# Add assets to protocol folder
|
|
next if protocol.steps.count <= 0
|
|
protocol.steps.order(:id).each do |step|
|
|
step_guid = get_guid(step.id)
|
|
step_dir = "#{protocol_dir}/#{step_guid}"
|
|
if step.assets.exists?
|
|
step.assets.order(:id).each do |asset|
|
|
next unless asset.file.attached?
|
|
asset_guid = get_guid(asset.id)
|
|
asset_file_name = asset_guid.to_s + File.extname(asset.file_name).to_s
|
|
ostream.put_next_entry("#{step_dir}/#{asset_file_name}")
|
|
ostream.print(asset.file.download)
|
|
end
|
|
end
|
|
ostream = step.tiny_mce_assets.save_to_eln(ostream, step_dir)
|
|
end
|
|
end
|
|
end
|
|
z_output_stream.rewind
|
|
|
|
protocol_name = get_protocol_name(@protocols[0])
|
|
|
|
# Now generate filename of the archive and send file to user
|
|
if @protocols.count == 1
|
|
# Try to construct an OS-safe file name
|
|
file_name = 'protocol.eln'
|
|
unless protocol_name.nil?
|
|
escaped_name = protocol_name.gsub(/[^0-9a-zA-Z\-.,_]/i, '_')
|
|
.downcase[0..Constants::NAME_MAX_LENGTH]
|
|
file_name = escaped_name + '.eln' unless escaped_name.blank?
|
|
end
|
|
elsif @protocols.length > 1
|
|
file_name = 'protocols.eln'
|
|
end
|
|
|
|
@protocols.each do |p|
|
|
if params[:my_module_id]
|
|
my_module = MyModule.find(params[:my_module_id])
|
|
Activities::CreateActivityService
|
|
.call(activity_type: :export_protocol_from_task,
|
|
owner: current_user,
|
|
project: my_module.experiment.project,
|
|
subject: my_module,
|
|
team: current_team,
|
|
message_items: {
|
|
my_module: params[:my_module_id].to_i
|
|
})
|
|
else
|
|
Activities::CreateActivityService
|
|
.call(activity_type: :export_protocol_in_repository,
|
|
owner: current_user,
|
|
subject: p,
|
|
team: current_team,
|
|
message_items: {
|
|
protocol: p.id
|
|
})
|
|
end
|
|
end
|
|
|
|
send_data(z_output_stream.read, filename: file_name)
|
|
end
|
|
end
|
|
end
|
|
|
|
def unlink_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: t('my_modules.protocols.confirm_link_update_modal.unlink_title'),
|
|
message: t('my_modules.protocols.confirm_link_update_modal.unlink_message'),
|
|
btn_text: t('my_modules.protocols.confirm_link_update_modal.unlink_btn_text'),
|
|
url: unlink_protocol_path(@protocol)
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def revert_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: t('my_modules.protocols.confirm_link_update_modal.revert_title'),
|
|
message: t('my_modules.protocols.confirm_link_update_modal.revert_message'),
|
|
btn_text: t('my_modules.protocols.confirm_link_update_modal.revert_btn_text'),
|
|
url: revert_protocol_path(@protocol)
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def update_parent_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: t('my_modules.protocols.confirm_link_update_modal.update_parent_title'),
|
|
message: t('my_modules.protocols.confirm_link_update_modal.update_parent_message'),
|
|
btn_text: t('general.update'),
|
|
url: update_parent_protocol_path(@protocol)
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def update_from_parent_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: t('my_modules.protocols.confirm_link_update_modal.update_self_title'),
|
|
message: t('my_modules.protocols.confirm_link_update_modal.update_self_message'),
|
|
btn_text: t('general.update'),
|
|
url: update_from_parent_protocol_path(@protocol)
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def load_from_repository_datatable
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
@type = (params[:type] || 'public').to_sym
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: ::LoadFromRepositoryProtocolsDatatable.new(
|
|
view_context,
|
|
@protocol.team,
|
|
@type,
|
|
current_user
|
|
)
|
|
end
|
|
end
|
|
end
|
|
|
|
def load_from_repository_modal
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
html: render_to_string({
|
|
partial: "my_modules/protocols/load_from_repository_modal_body.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def copy_to_repository_modal
|
|
@new = Protocol.new
|
|
@original = Protocol.find(params[:id])
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
html: render_to_string({
|
|
partial: "my_modules/protocols/copy_to_repository_modal_body.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def protocol_status_bar
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
html: render_to_string({
|
|
partial: "my_modules/protocols/protocol_status_bar.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def updated_at_label
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
html: render_to_string({
|
|
partial: "protocols/header/updated_at_label.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def create_new_modal
|
|
@new_protocol = Protocol.new
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
html: render_to_string({
|
|
partial: "protocols/index/create_new_modal_body.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def edit_name_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: I18n.t('protocols.header.edit_name_modal.title',
|
|
protocol: escape_input(@protocol.name)),
|
|
html: render_to_string({
|
|
partial: "protocols/header/edit_name_modal_body.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def edit_keywords_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: I18n.t('protocols.header.edit_keywords_modal.title',
|
|
protocol: escape_input(@protocol.name)),
|
|
html: render_to_string({
|
|
partial: "protocols/header/edit_keywords_modal_body.html.erb"
|
|
}),
|
|
keywords: @protocol.team.protocol_keywords_list
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def edit_authors_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: I18n.t('protocols.header.edit_authors_modal.title',
|
|
protocol: escape_input(@protocol.name)),
|
|
html: render_to_string({
|
|
partial: "protocols/header/edit_authors_modal_body.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
def edit_description_modal
|
|
respond_to do |format|
|
|
format.json do
|
|
render json: {
|
|
title: I18n.t('protocols.header.edit_description_modal.title',
|
|
protocol: escape_input(@protocol.name)),
|
|
html: render_to_string({
|
|
partial: "protocols/header/edit_description_modal_body.html.erb"
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
|
|
private
|
|
|
|
def valid_protocol_json(json)
|
|
JSON.parse(json)
|
|
return true
|
|
rescue JSON::ParserError => e
|
|
return false
|
|
end
|
|
|
|
def move_protocol(action)
|
|
rollbacked = false
|
|
results = []
|
|
begin
|
|
Protocol.transaction do
|
|
@protocols.find_each do |protocol|
|
|
result = {
|
|
name: protocol.name
|
|
}
|
|
|
|
success = protocol.method(action).call(current_user)
|
|
|
|
# Try renaming protocol
|
|
unless success
|
|
rename_record(protocol, :name)
|
|
success = protocol.method(action).call(current_user)
|
|
end
|
|
|
|
result[:new_name] = protocol.name
|
|
result[:type] = protocol.protocol_type
|
|
result[:success] = success
|
|
results << result
|
|
end
|
|
end
|
|
rescue
|
|
rollbacked = true
|
|
end
|
|
|
|
respond_to do |format|
|
|
if rollbacked
|
|
format.json do
|
|
render json: {}, status: :bad_request
|
|
end
|
|
else
|
|
format.json do
|
|
render json: {
|
|
html: render_to_string({
|
|
partial: "protocols/index/results_modal_body.html.erb",
|
|
locals: { results: results, en_action: "#{action}_results" }
|
|
})
|
|
}
|
|
end
|
|
end
|
|
end
|
|
end
|
|
|
|
def load_team_and_type
|
|
@current_team = current_team
|
|
# :public, :private or :archive
|
|
@type = (params[:type] || 'public').to_sym
|
|
end
|
|
|
|
def check_view_all_permissions
|
|
load_team_and_type
|
|
|
|
render_403 unless can_read_team?(@current_team)
|
|
end
|
|
|
|
def check_view_permissions
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
unless @protocol.present? &&
|
|
(can_read_protocol_in_module?(@protocol) ||
|
|
can_read_protocol_in_repository?(@protocol))
|
|
respond_to { |f| f.json { render json: {}, status: :unauthorized } }
|
|
end
|
|
end
|
|
|
|
def check_create_permissions
|
|
load_team_and_type
|
|
|
|
if !can_create_protocols_in_repository?(@current_team) || @type == :archive
|
|
render_403
|
|
end
|
|
end
|
|
|
|
def check_clone_permissions
|
|
load_team_and_type
|
|
@original = Protocol.find_by_id(params[:id])
|
|
|
|
if @original.blank? ||
|
|
!can_clone_protocol_in_repository?(@original) || @type == :archive
|
|
render_403
|
|
end
|
|
end
|
|
|
|
def check_manage_permissions
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
render_403 unless @protocol.present? &&
|
|
(can_manage_protocol_in_module?(@protocol) ||
|
|
can_manage_protocol_in_repository?(@protocol))
|
|
end
|
|
|
|
def check_manage_parent_in_repository_permissions
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
render_403 unless @protocol.present? &&
|
|
can_read_protocol_in_module?(@protocol) &&
|
|
can_manage_protocol_in_repository?(@protocol.parent)
|
|
end
|
|
|
|
def check_manage_all_in_repository_permissions
|
|
@protocols = Protocol.where(id: params[:protocol_ids])
|
|
@protocols.find_each do |protocol|
|
|
unless can_manage_protocol_in_repository?(protocol)
|
|
respond_to { |f| f.json { render json: {}, status: :unauthorized } }
|
|
break
|
|
end
|
|
end
|
|
end
|
|
|
|
def check_restore_all_in_repository_permissions
|
|
@protocols = Protocol.where(id: params[:protocol_ids])
|
|
@protocols.find_each do |protocol|
|
|
unless can_restore_protocol_in_repository?(protocol)
|
|
respond_to { |f| f.json { render json: {}, status: :unauthorized } }
|
|
break
|
|
end
|
|
end
|
|
end
|
|
|
|
def check_load_from_repository_views_permissions
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
|
|
render_403 if @protocol.blank? || !can_read_protocol_in_module?(@protocol)
|
|
end
|
|
|
|
def check_load_from_repository_permissions
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
@source = Protocol.find_by_id(params[:source_id])
|
|
|
|
render_403 unless @protocol.present? && @source.present? &&
|
|
(can_manage_protocol_in_module?(@protocol) &&
|
|
can_read_protocol_in_repository?(@source))
|
|
end
|
|
|
|
def check_load_from_file_permissions
|
|
@protocol_json = params[:protocol]
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
@my_module = @protocol.my_module
|
|
|
|
if @protocol_json.blank? ||
|
|
@protocol.blank? ||
|
|
@my_module.blank? ||
|
|
!can_manage_protocol_in_module?(@protocol)
|
|
render_403
|
|
end
|
|
end
|
|
|
|
def check_copy_to_repository_permissions
|
|
@protocol = Protocol.find_by_id(params[:id])
|
|
@my_module = @protocol.my_module
|
|
|
|
render_403 unless @my_module.present? &&
|
|
(can_read_protocol_in_module?(@protocol) ||
|
|
can_create_protocols_in_repository?(@protocol.team))
|
|
end
|
|
|
|
def check_import_permissions
|
|
@protocol_json = params[:protocol]
|
|
@team = Team.find(params[:team_id])
|
|
@type = params[:type] ? params[:type].to_sym : nil
|
|
unless @protocol_json.present? && @team.present? &&
|
|
(@type == :public || @type == :private) &&
|
|
can_create_protocols_in_repository?(@team)
|
|
render_403
|
|
end
|
|
end
|
|
|
|
def check_export_permissions
|
|
@protocols = Protocol.where(id: params[:protocol_ids])
|
|
render_403 if @protocols.blank?
|
|
@protocols.each do |p|
|
|
render_403 unless can_read_protocol_in_module?(p) ||
|
|
can_read_protocol_in_repository?(p)
|
|
end
|
|
end
|
|
|
|
def copy_to_repository_params
|
|
params.require(:protocol).permit(:name, :protocol_type)
|
|
end
|
|
|
|
def create_params
|
|
params.require(:protocol).permit(:name)
|
|
end
|
|
|
|
def check_protocolsio_import_permissions
|
|
render_403 unless can_create_protocols_in_repository?(current_team)
|
|
end
|
|
|
|
def log_activity(type_of, project = nil, message_items = {})
|
|
message_items = { protocol: @protocol&.id }.merge(message_items)
|
|
Activities::CreateActivityService
|
|
.call(activity_type: type_of,
|
|
owner: current_user,
|
|
subject: @protocol,
|
|
team: current_team,
|
|
project: project,
|
|
message_items: message_items)
|
|
end
|
|
|
|
def protocol_annotation_notification(old_text)
|
|
smart_annotation_notification(
|
|
old_text: old_text,
|
|
new_text: @protocol.description,
|
|
title: t('notifications.protocol_description_annotation_title',
|
|
user: current_user.full_name,
|
|
protocol: @protocol.name),
|
|
message: t('notifications.protocol_description_annotation_message_html',
|
|
protocol: link_to(@protocol.name, edit_protocol_url(@protocol)))
|
|
)
|
|
end
|
|
end
|