Revision history for Perl extension MOBY.
1.12
- Updated CommonSubs to remove all hard coded entries for the
namespace prefix 'moby:'. In addition, all references to
nodeName were replaced with localname so that element namespace
prefixes are ignored since they dont really matter.
Also, the localnames/prefixes are resolved to check the namespaceURI.
1.11
- Updated the Makefile.PL to handle some missing dependencies.
Changes
* Updated the RESOURCES script to better handle trailing slashes
on Objects/, Namespaces, Services/
* Updated the regex expressions that are applied against terms
when registering new nodes in the biomoby ontologies.
1.10
- Added a RESTful WSDL page to the installation. Basically, you do
a GET on BioMobyWSDL/authURI/servicename/ and a WSDL for that service
is returned.
** Thanks to José Manuel RodrÃguez Carrasco **
- Updated _moby_getAttribute and _moby_getAttributeNode so that the
warning regarding unitialized value is no longer given when running
t/CommonSubs.t or using CommonSubs.pm.
1.09
- Fixed bug where data types registered into registry could contain
illegal characters.
* added some tests to Client-Central.t to test for this condition
1.08
- Fixed META.yml in the distribution. Please refer to changes for 1.07.
1.07
- Important: run the script moby-s-update-db once you have installed
this module if you have *upgraded* an existing installation.
- Fix bug in CollectionArticle, SimpleInput, SecondaryArticle, and
SimpleArticle that caused objects created to have 'memory'.
- Updated the MOBY::Client::ServiceInstance module to reflect
the fact that services can have >= 0 MobyUnitTests.
- In MOBY::RDF::Utils, fixed typo in the
ref ($self) =~ m// statement
- In MOBY::RDF::Ontologies::Services, added a loop to go over
the array of unit tests
- MOBY::RDF::Parsers::ServiceParser, added a loop to parse out
unit tests in those instances that more than one is defined,
and added code to parse out the datatype/namespace/servicetype
term from a uri/lsid.
- Added the function 'raw_execute' to MOBY::Async::Service to
allow calling of services with raw XML similarly to the method
in MOBY::Client::Service.
- Fixed typo in MOBY::Client::Service that refered to POST
services as category 'post' rather than 'cgi'
- updated service_unit_tester.pl to handle cgi/moby/moby-async
services and to take into account that services can have >= 0
unit tests.
- fixed bug in Central.pm that allowed you to register datatypes
with similar articlenames to other members in the datatype.
- added cgi-async to category of services that registry understands.
1.06
- Changes to makefile reflecting the cpan addition of wsrf.
- Added Boolean to the data sql dump file for initializing
a new registry.
- Added character encoding checks to the data kept in the
registry. All data used in the register* methods are
checked to be encoded in UTF-8
- Added $VERSION info for all the modules. Sorry if this
creates some initial confusion; The longer term gains
far exceed any short term disruptions.
- Cosmetic fixes in Service.pm and SimpleServer.pm.
- Fixed a bug in WSRF.pm related to temporal file location/creation
introduced by a previous commit
- Bug fix related to asynchronous MOBY calls with empty mobyData elements.
MOBY::Async::SimpleServer uses serviceInputParser, which had the bug fixed.
- Added "no warnings 'redefine';" to MOBY::Async::WSRF to suppress redefinition
warnings.
- Added Unit test predicates to FETA.pm
- Created module that can be used to test Moby services. This module is
MOBY::Client::MobyUnitTest. Methods for determining whether differences
exist are complete. Currently, the method to obtain differences is
unfinished.
- Fixed the uri in the RDF returned in MobyMetadataResolver.pm when
the resolver is attempting to let you know what the latest lsid is
for the given entity.
- RDF for service instances now includes unit test information if unit
test information is available for the service instance.
- fixed how references were created in MOBY::RDF::Ontologies::*
- added a unit testing script for services to the shared/cgi dir.
1.05
- Multiple bug fixes / additions to installer (thanks to Jason Stewart),
as follows:
Additions
* detecting root and giving a warning if not root
* creating apache file in conf.d/ if running apache2
* added apache defaults for debian/ubuntu systems
* added a couple longer messages to give people a heads up
what is happening.
* changed many/most of the do {...} if pprompt() to
if (prompt()) {...}
* changed the big multi-line messages from multiple
say "..." to say <<EOT;
* re-indented most of the file - the whitespace was messed
up on Emacs22.
bug fixes
* the prompt menu for cloning the DB has a default of 'b'
in the prompt string, but no default in the actual call to
prompt() so if the user didn't type anything they got an
ugly error
* in prompt_for_directory() switched the cases around for -e
and -w otherwise -e wouldn't get triggered
* in config_file_from_template() added an if defined $fh test
* added a chmod 644 to the mobycentral.config because it has
the DB root password
* called die() if mysql wasn't detected
- fixed a bug in the service_tester.pl script that referenced $opt_c
instead of $url. (thanks to Jason Stewart)
- prompt for a username/password for the registry to access the db.
if the user doesnt exist, we add it. This helps us stay away from
using the root password in the mobycentral.config file.
- Fixed bug in the service instance cache code. Services from service
providers with other registered services was not updating itself
correctly.
- isAlive information is removed from cached rdf because it made
absolutely no sense keeping it there.
- #'s converted to forward slashes so that the URIs are resolvable
- fixed a bug in Services.pm that caused the incorrect domain
name to be placed
- file MOBY-Server/t/MOBY.t removed because it was tesing a non-existant
module
- fixed the installer script, username/password, root/root was hardcoded
- fixed a bug in MOBY::dbConfig that caused certain parameters to be
ignored in the configuration file if a field was empty.
- added a caching script to be used by registry providers needing to
update their cache.
For more information, run:
moby-s-caching.pl -h
1.04
- fixed bug in MOBY::Client::Central::DUMP that resulted
in an error ('Not an ARRAY reference at
MOBY/Client/Central.pm line 1927') being raised.
Thanks to Pieter Neerincx for finding the bug and a
solution.
- fixed bug that allowed service types to be registered
with empty ISA relationships.
- MOBY::Config now only reads the config file once instead
of numerous times.
- Attempted fix of shared memory bugs with service_tester.pl
Shared memory wasn't being recycled properly and led to the
server running the script to run out of memory segments,
causing the script to run, but not to produce any output.
- MOBY WSRF implementation was not WSRF compliant in some
points, and the same happened with sample code. Both the
libraries and the generated WSDL have been fixed.
- Added checks for those cases where RDF is wanted for a
particular ontology that is empty. Instead of dying,
we now return an empty document (as should be expected).
- Fixed a bug in the schema for secondary inputs. The schema
was missing the column 'description'
1.00
- CVS version of MOBY released to the world via CPAN!