BA Milestone 8

Pending jobs for new requests.

In the Jobs column, newly created analysis requests are now noted with pending to indicate that it does not have jobs yet. Previously, the default label in the Jobs column was either “Single” or Multiple” to give an idea about the number of jobs created for a request.

Open

Pending job creation

Color-coding of trait data is now consistent with Core Breeding tools and PDM.

When viewing () the job outputs for a request, the color coding of data is now standardized with PDM and Core Breeding’s Experiment Manager and Data Collection tools. Possible outliers are highlighted in light orange, while suppressed ones are in gray.

Color-coding of trait data is now consistent with Core Breeding tools and ARM.

In the Trait table, the color coding of trait data is now standardized with ARM and Core Breeding’s Experiment Manager and Data Collection tools. Cells with possible outliers are highlighted in light orange, while suppressed and bad ones are in gray and red, respectively. Questionable and good data are both displayed without color, while missing ones are highlighted in blue and denoted with “NA”.

Bug fix

1. You can now properly see the BA homepage before logging in and when signed out, and

2. When clicked, tool names are highlighted in gray in the left navigation menu.

The left navigation menu is improved.

For your convenience, you can now choose to have the left navigation menu always open. To do this, simply expand the left navigation menu () and find the > button near the bottom. Otherwise, click < to hide the menu.

Selection of experiment occurrences for single-occurrence analysis (SOA) requests is improved.

This version improves on the experiments and occurrences listed in the Experiments tab. Specifically, you can now:

1. Select occurrences using the unspecified design. You can now use occurrences from Breeding Trial experiments using the Unspecified design to create a SOA request. From the ARM data browser, request for a SOA. Select the occurrence from the Experiments tab and choose the traits you want to request analyses for. Once done, click Submit to send your request. Wait for the results by monitoring the job statuses in the ARM data browser.

2. Add more occurrences to your SOA request. This feature lets you select occurrence/s in the same experiment and add them to your current SOA request. To do this, check the quality of your trait data in PDM. After you quality-check (QC) at least one (1) trait in PDM, you can now proceed to Analyze your occurrence in ARM. You will be redirected to ARM’s Experiments tab, where all your experiment’s occurrences are listed. Here, the current occurrence is already selected, but you can select more for inclusion in your current SOA request.

Selection of jobs for multi-occurrence analysis requests (MOA) is enhanced.

In preparation to support MOA requests soon, a better display of all finalized jobs in the Experiments tab is now featured. From the ARM data browser, request for a MOA. The job IDs for each analyzed trait is now housed in a drop-down menu. Select the jobs analyzing the same trait from at least two (2) different occurrences. You can unselect a job for a trait by choosing the “---” option. Additionally, a tool tip is shown when you hover your cursor over each job. This shows the date and time the job was finalized.

Bug fixes

You can expect to encounter no errors when:

1. filtering the SOA and MOA Experiments tab data browsers and expanding each experiment to show occurrence/s, and

2. voiding the last job in a request, which will automatically redirect you to the ARM data browser.

Management of occurrences is improved.

This version resolves the PDM data browser’s limitations cited in the 23.09 version. Specifically, you can now:

1. Browse more occurrences. You can now browse all Breeding Trial (BT) experiment’s occurrences in the PDM data browser. You can also navigate the list easily using the pagination and filter feature. Previously, only a hundred records were available in the browser.

2. Immediately reflect QCed traits. In the Traits Table, you can now expect that quality-checked (QCed) trait columns are readily highlighted in green. Click the save () icon from the toolbar and mark the trait/s as QCed. Finally, Save the transaction.

3. Select occurrences using the unspecified design. BT experiments using the Unspecified design are now included in the occurrences available for selection in the PDM data browser. From the PDM data browser, Explore the trait data quality of occurrences using the Unspecified design.

Bug fixes

Reported issues have been fixed. The following are now working as expected:

1. A heatmap graph is plotted using the planting arrangement X and Y (PA X, PA Y) values.

2. Reflect new trait data in the Trait Table and Trait List boxes after you update your trait data to the latest available version from Core Breeding.