Changes between Version 1 and Version 2 of Ticket #792, comment 7


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Timestamp:
Jun 26, 2015, 4:07:12 PM (9 years ago)
Author:
olle

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  • Ticket #792, comment 7

    v1 v2  
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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 than 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, if one wants selection in later wizards to be restricted to a single group item representing an earlier selection of extract source items. In this case there is not much help to be found in sister project Reggie, since there one normally selects the 12 next items in turn in several wizards.
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    88Design 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).
     10 1. A plausible candidate item for storing an item selection is the BASE item type "`ItemList`". However, this item type was first introduced 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).