Release date - 16 Feb 2018 

GDM Loader download - GDI-Test

New Features

• LoaderUI Job Validation

  • Marker Wizard Mapping Validation
    • Mapping Marker table: Required Fields must have values: marker_name
    • A Platform must be selected
    • in order to map Marker_prop Table, Marker table must be mapped
    • Mapping Linkage_Group table: Required Fields must have values: Linkage_Group_name
    • A Mapset must be selected
    • Mapping Marker_Linkage_Group table: Required Fields must have values: Linkage_Group_name, Marker_Name
    • If Marker table is mapped, then Marker "name" must be equal to Marker_Linkage_Group "marker_name"
    • If Linkage_Group is mapped, then Linkage_Group "name" must be equal to Marker_Linkage_Group "linkage_group_name"
  • DNA Sample Wizard Mapping Validation
    • Mapping Germplasm Table: Required Fields must have values: germplasm_name, germplasm_external_code
    • in order to map Gerplasm_prop Table, Germplasm table must be mapped
    • Mapping Dnasample table: a Project must be selected, Required Fields must have values: dnasample_name, external_code, dnasample_num
    • If Germplasm table is mapped, then Germplasm "external_code" must be equal to Dnasample "external_code"
    • in order to map Dnasample_prop Table, Dnasample table must be mapped
    • Mapping Dnarun table: Required Fields must have values: dnarun_name
    • An Experiment must be selected
    • If Dnarun "dnasample_name" is mapped, then Dnarun "dnasample_name" must be equal to Dnasample "name
    • If Dnarun "num" is mapped, then Dnarun "num" must be equal to Dnasample "num"
    • in order to map Dnarun_prop Table, Dnarun table must be mapped
  • Dataset Wizard Mapping Validation
    • Similar validations as Marker and DNA Sample Wizards as listed above

• Integrate DART QC With GOBII

  • KDCompute, dockerized version, deployed & integrated along with the given GOBII environment.
  • When the site does not support QC Analysis, the qc checkbox is disabled.
  • Web service support for the Loader UI to determine whether or not a particular site supports QC integration.
  • When an error occurs during QC processing, the internal error report should be attached to the email so that it can be forwarded to support.
  • Total run time of QC job is reported in summary email.
  • QC analysis output files will be stored in a separate QC folder.
    • Dataset.hmp.txt
    • dataset_summary.csv
    • dev_DS-2.log
    • F1.csv
    • marker.file
    • Report.xlsx
    • Reproducibility.csv
    • Reproducibility_By_germplasm_n
    • sample.file
    • Similarity_matrix.csv
    • Similarity_matrix_columnwise.c
    • Similarity_matrix_with_meta.cs
    • stderr.txt
    • stdout.txt
    • summary.file
    • Summary_markers.csv
    • Summary_samples.csv
    • Summary_samples_averages.csv
    • Summary_samples_chisq.csv

Bug Fixes

• Error with Flapjack export by marker (from large dataset) - missing data and incorrect data
• Extract of IUPAC data in flapjack orientation causes weird duplication
• Cannot load a dataSet with markers at the top and dnarun_names on the left Fixed issue with data loads specifying marker as 'top' in Dataset wizard due to file transposition code not completing before next step began.
• Marker Group file w/o platforms crashes LoaderUI