Milestone Module - Service lab plugin

Aim is the implementation of the plugin that is specific for the service lab and contains functions that are only necessary for them:

Generate a bill proposal based on what analysts have uploaded

• Creation of a management module
  • allows to classify each protocol into known protocols and new protocols
  • For each protocol a display name can be specified
  • Associate a set of costs with each protocol
    • static costs = total number given
    • Dynamic costs = amount is multiplied with the value of a parameter of the protocol
• Generate a bill proposal for a project
  • go over all samples and find all protocols
  • for each "chargeable" protocol give the name, the total amount and the samples
  • output as word file

Validation of data completeness

• Management module
  • Allow associating a Task (preference) with a list of protocols (known protocols) and a min and max number of protocols that need to be executed for each task
  • Allow associating of Protocols with files
    • Number of files of a type that need to be provide
    • Main category of the file
    • Sub category of the file
• Implement a check function
  • can be triggered manually or as part of the bill proposal
  • gives a summary of inconsistencies
    • check if for each task (* number of task) enough protocols are present
    • check for each leaf in the protocol graph if a task is present
    • check if for each protocol the required files are uploaded

Notification email for samples

• Management module that allows to associate people (preference) with email addresses
• Preference for email settings
• Function that can be called per project or per sample and shows the list of people, after user selection an notification email is send to the selected people

Generation of a Service lab report

• Use the text templates associated with the protocols to generated a report stub with the description of the performed experiment
  • Tree structure of the experiment design need to be considered
  • Place holder need to be replaced with actual parameter values

Update parameter with information from uploaded files

• Have separate menu options to upload certain files (NMR, MS) to protocols
• These files are parsed and information is extracted and used to update the parameters in the protocol
• Files are added to the right archive or archive is created first
• Candidates for data extraction
  • NMR files = instrument time
  • MS files = number of scans

Upload of the final bill

• File is stored in the project archive
• Associated amount is separately