Damian, I'm running into the same problems as Trevor with MartEditor:
after several iterations of successful editing & exporting to db of a
given dataset, MEditor starts importing configuration for the
template
($datasetname_template). It subsequently insists on saving this
back to
the database, with no effect on the actual dataset I was trying to
edit.
I'll try to use the workaround Trevor mentioned to salvage my
config,
but annoying nonetheless. I am using martj from CVS, is this a lesser
problem in the official 0.5 release perhaps? I am reluctant to invest
much work in configuring datasets if this keeps happening.
BTW In case it gives a clue in resolving this bug: when I do 'Save
all' to save config XML to disk, I get one file named $dataset.xml
and
another named $dataset_template.template.xml for each dataset in my
mart. Here's a sample diff of the first few elements in one of those
pairs. Besides the extra filter in the second XML (the one I'm
trying to
add but can't!!), there's differences in the DatasetConfig element,I
reckon that's where Trevor did his editing before loading back to the
db. Dunno if that's normal for template vs non-template XML?
[EMAIL PROTECTED] /tmp/allelefrequency.xml
/tmp/allelefrequency_template.template.xml
3c3,4
< <DatasetConfig dataset="AlleleFrequency" datasetID="3"
displayName="AlleleFrequency" hideDisplay="false"
interfaces="default"
internalName="default" martUsers="default" modified="2007-06-05
14:52:41" softwareVersion="0.6" template="AlleleFrequency"
type="TableSet" visible="1">
---
<DatasetConfig dataset="AlleleFrequency_template"
displayName="AlleleFrequency" hideDisplay="false"
interfaces="default"
internalName="template" martUsers="default" modified="2007-06-05
11:44:23.589" softwareVersion="0.6" template="AlleleFrequency"
type="TableSet" visible="1">
<DynamicDataset hideDisplay="false"
internalName="AlleleFrequency" />
10a12,16
<FilterDescription displayName="Frequencyasproportion"
displayType="text" field="frequencyasproportion" hidden="false"
hideDisplay="false" internalName="frequencyasproportion"
key="AlleleFrequencyID_key" legal_qualifiers="=" qualifier="="
tableConstraint="main" type="text">
<Option displayName="0.1" hidden="false" hideDisplay="false"
internalName="0.1" isSelectable="1" value="0.1" />
<Option displayName="0.3" hidden="false" hideDisplay="false"
internalName="0.3" isSelectable="1" value="0.3" />
<Option displayName="0.3" hidden="false" hideDisplay="false"
internalName="0.3" isSelectable="1" value="0.3" />
</FilterDescription>
Mummi
Damian Smedley
Tue, 13 Mar 2007 08:55:48 -0800
sounds like the template file which is what you are really
editing when
using MartEditor has lost its mapping to the actual datasetConfig
XML.
This template code in MartEditor is not particularly robust yet
so the
XML
has probably got into a mess - do you want to send it to us and
we can
try
and spot what the problem is
cheers
Damian
On Tue, 13 Mar 2007, trevor paterson (RI) wrote:
I am getting into difficulties trying to redit dataset
configuration
files using MartEditor...
changes that i make don't seem to get 'Export'-ed back to the
database -
(though they do hang around in the Marteditor memory)
eg
if i have a dataset called maps...
if i connect to the dataset witwith MartEditor and edit the
config of
filters on maps..
'Export' does not write changes back to the database config tables
if I 'SaveAll' the edits do get saved to a file e.g
maps.template.xml...
I can then copy and rename this to maps.xml (changing a couple of
attributes in the file)
and then overwrite the changes to the database using 'Upload All' -
this
then works
however this is very laborious and error prone - are their known
issues
with this process, or any work arounds ? -
the logic of the two files maps.xml and maps.template.xml is
opaque to
me
cheers
Trevor Paterson
