Changes between Initial Version and Version 1 of Ticket #792, comment 7


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Timestamp:
Jun 10, 2015, 11:01:49 AM (9 years ago)
Author:
olle

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  • Ticket #792, comment 7

    initial v1  
    11Design discussion:
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    3 At MeLuDI meeting 2015-06-08 on planning for Library Preparation wizards, some general decisions were made, that affects previous wizards:
     3At MeLuDI meeting 2015-06-08 on planning for Library Preparation wizards, some general decisions were made, that affect previous wizards:
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    55 * Support for "Extra material", i.e. samples/extracts not included in the main MeLuDI project, should be added to all stages of the MeLuDI pipeline. This includes the case registration wizards, but details regarding name conventions and sample types etc. have not been decided yet. The new policy means that values for different quantities should be stored for extra material, as well as for normal MeLuDI samples/extracts.
    6  * Currently, extract source item selections in DNA/RNA extraction wizards are stored using annotations for a start plate; a "DNA reaction plate" library plate with name consisting of "`LP`" plus a 5-figure number, on which the DNA extracts were intended to be placed. However, placement on the start plate is first made during library preparation, and it is not certain that DNA extracts for all relevant items coupled to the plate through annotations, would finally be placed on the plate. Also, a start plate might include DNA extracts for source items coupled to another start plate. Therefore, it seemed natural to not introduce any start plate until library preparation, when DNA extracts are placed on it. A consequence is that extract source item selections in DNA/RNA extraction wizards must be stored in another item that a start plate.
     6 * Currently, extract source item selections in DNA/RNA extraction wizards are stored using annotations for a start plate; a "DNA reaction plate" library plate with name consisting of "`LP`" plus a 5-figure number, on which the DNA extracts were intended to be placed. However, placement on the start plate is first made during library preparation, and it is not certain that DNA extracts for all relevant items coupled to the plate through annotations, would finally be placed on the plate. Also, a start plate might include DNA extracts for source items coupled to another start plate. Therefore, it seemed natural to not introduce any start plate until library preparation, when DNA extracts are placed on it. A consequence is that extract source item selections in DNA/RNA extraction wizards must be stored in another item than a start plate.
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     8Design considerations:
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     10 1. A plausible candidate item for storing an item selection is the BASE item type "`ItemList`". However, this item type was introduced first in BASE v3.5.0, while MeLuDI is currently used with BASE v3.4.*. Item lists were introduced in BASE Ticket [http://base.thep.lu.se/ticket/1325 #1325] "Lists of items (similar funcion as biomaterial lists)". Reggie ticket #750 (Changes required for BASE version 3.5) describes what changes are necessary for a BASE extension, and the update of MeLuDI for use with BASE 3.5.* will be based on this (although MeLuDI requires less changes than Reggie).