I just wanted to bump this thread. Any chance of getting a new maven
maintainer added soon?
Cheers,
Spencer
On Fri, Aug 12, 2016 at 10:19 AM, Spencer Bliven <spencer.bli...@gmail.com>
wrote:
> So I guess the next step that needs to happen is for Nico to request that
> Mark get added to the OSS ticket. I haven't been an active Jmol
> contributor, but I'd be happy to help with maintaining the maven package if
> you want to add me too (OSS user sbliven).
>
> -Spencer
>
> On Thu, Aug 11, 2016 at 11:29 PM, Robert Hanson <hans...@stolaf.edu>
> wrote:
>
>> all checked in.
>>
>> On Thu, Aug 11, 2016 at 3:09 AM, Spencer Bliven <spencer.bli...@gmail.com
>> > wrote:
>>
>>> Awesome. BioJava has good mmtf support, so if we can get the new Jmol
>>> release into maven then MMTF might be a good exchange format for passing
>>> structures to Jmol. We're currently stuck with using PDB and are hurting
>>> from the limitations (e.g. on chain identifiers & number of atoms).
>>>
>>> -Spencer
>>>
>>> On Wed, Aug 10, 2016 at 6:41 PM, Robert Hanson <hans...@stolaf.edu>
>>> wrote:
>>>
>>>> Thanks, Spencer. I am in the process of releasing an important update
>>>> for BioJava, as a matter of fact -- PyMOL 1.8 dump_binary PSE files and the
>>>> new MMTF format from RCSB (which is FANTASTIC by the way...)
>>>>
>>>> Bob
>>>>
>>>> On Wed, Aug 10, 2016 at 9:25 AM, Spencer Bliven <
>>>> spencer.bli...@gmail.com> wrote:
>>>>
>>>>> Hey,
>>>>>
>>>>> I also took a crack at getting the dist-release command to complete,
>>>>> since it would be extremely nice to get BioJava using a more recent
>>>>> version
>>>>> of Jmol. Using the latest trunk I got all steps to complete by modifying
>>>>> tools/jmol-sonatype.xml as you suggest to refer to "${Jmol.properties.
>>>>> Jmol.___JmolVersion}" in line 30. This creates the build/dist-maven
>>>>> directory as desired.
>>>>>
>>>>> Right now only Tomas (plusik) and Nico (nicov) appear to be authorized
>>>>> to upload to maven central. It would be great if some additional people
>>>>> (e.g. Mark, Bob, perhaps even myself if desired) could get added to this.
>>>>> Authorization
>>>>> is granted by adding a user to your OSS project ticket (
>>>>> https://issues.sonatype.org/browse/OSSRH-3633).
>>>>>
>>>>> Any work towards a maven release is much appreciated. Let me know if I
>>>>> can do anything to help with this.
>>>>>
>>>>> -Spencer
>>>>>
>>>>>
>>>>>
>>>>> On Sat, Jul 30, 2016 at 4:39 AM, Robert Hanson <hans...@stolaf.edu>
>>>>> wrote:
>>>>>
>>>>>> I'm not sure how ${Jmol.properties.___JmolVersion} would be the
>>>>>> version number. In Build.xml it is:
>>>>>>
>>>>>> <property name="version" value="${Jmol.properties.Jmol.___JmolVersion}"
>>>>>> />
>>>>>> <propertyregex property="version"
>>>>>> override = "true"
>>>>>> input="${version}"
>>>>>> regexp='"'
>>>>>> replace=""
>>>>>> global="true"
>>>>>> />
>>>>>> <echo message="version=${version}" />
>>>>>>
>>>>>>
>>>>>> So you are missing that regex process.
>>>>>>
>>>>>>
>>>>>>
>>>>>> On Mon, Jul 25, 2016 at 9:18 AM, Mark Williamson <m...@mjw.name>
>>>>>> wrote:
>>>>>>
>>>>>>> On 17/05/16 23:15, Robert Hanson wrote:
>>>>>>> > Will be checking in Jmol 14.6 release as soon as I can. But it's
>>>>>>> not a
>>>>>>> Maven release. Someone else has to do that.
>>>>>>>
>>>>>>> Sorry for the delay in replying. I have been attempting to use the
>>>>>>> ant
>>>>>>> build script, tools/jmol-sonatype.xml, to build some artifacts for
>>>>>>> deployment to Maven central. Here is my protocol (apologies, I am not
>>>>>>> that familiar with ant and may have made some basic errors):
>>>>>>>
>>>>>>>
>>>>>>> Preamble
>>>>>>> ---------
>>>>>>> 0) Start with a 64 bit install of Ubuntu 14.04.4
>>>>>>>
>>>>>>> 1) Install the following packages
>>>>>>> sudo apt-get install mvn libsaxon-java openjdk-7-jdk ant
>>>>>>>
>>>>>>> 2) Create ~/.jmol.build.properties file with contents
>>>>>>> <property name="keystore.name" value="selfSignedCertificate" />
>>>>>>>
>>>>>>>
>>>>>>> Main
>>>>>>> ----
>>>>>>> 1) Obtain the source code and extract
>>>>>>> wget
>>>>>>> http://heanet.dl.sourceforge.net/project/jmol/Jmol/Version%2
>>>>>>> 014.6/Version%2014.6.1/Jmol-14.6.1_2016.07.11-full.tar.gz
>>>>>>>
>>>>>>> tar xfvz Jmol-14.6.1_2016.07.11-full.tar.gz
>>>>>>> cd jmol-14.6.1_2016.07.11
>>>>>>>
>>>>>>> 2) Add a required jar to enable docs to be built
>>>>>>> cp /usr/share/java/saxon.jar ./jars/
>>>>>>>
>>>>>>> 3) Build jar target
>>>>>>> ant jar
>>>>>>> <input ~/.jmol.build.properties as the private property file >
>>>>>>>
>>>>>>> 4) Build dist target
>>>>>>> ant dist
>>>>>>> <input ~/.jmol.build.properties as the private property file >
>>>>>>>
>>>>>>> This fails with an error stating that “srcjsv does not exist” and
>>>>>>> this
>>>>>>> is because I do not have the source to JSpecView in the tree.
>>>>>>> However,
>>>>>>> if I should omit the line 1216 in build.xml, for the sake of reaching
>>>>>>> the next step:
>>>>>>>
>>>>>>> <!-- <fileset dir="srcjsv" />-->
>>>>>>>
>>>>>>> And proceed to this:
>>>>>>>
>>>>>>> ant -f ./tools/jmol-sonatype.xml dist-release
>>>>>>>
>>>>>>> Then, the following error is seen:
>>>>>>> BUILD FAILED
>>>>>>> /home/mw529/code/jmol/dev/jmol-14.6.1_2016.07.11/tools/jmol-
>>>>>>> sonatype.xml:91:
>>>>>>> Warning: Could not find file
>>>>>>> /home/mw529/code/jmol/dev/jmol-14.6.1_2016.07.11/build/dist/
>>>>>>> jmol-${Jmol.properties.___JmolVersion}-javadoc.jar
>>>>>>> to copy.
>>>>>>>
>>>>>>>
>>>>>>> I am guessing that this seems to be some form of mis-parsing of the
>>>>>>> Jmol.properties.___JmolVersion in the build/dist directory?
>>>>>>>
>>>>>>> Do you have any suggestions on how to resolve this?
>>>>>>>
>>>>>>> Thanks,
>>>>>>>
>>>>>>> Mark
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> ------------------------------------------------------------
>>>>>>> ------------------
>>>>>>> What NetFlow Analyzer can do for you? Monitors network bandwidth and
>>>>>>> traffic
>>>>>>> patterns at an interface-level. Reveals which users, apps, and
>>>>>>> protocols are
>>>>>>> consuming the most bandwidth. Provides multi-vendor support for
>>>>>>> NetFlow,
>>>>>>> J-Flow, sFlow and other flows. Make informed decisions using
>>>>>>> capacity planning
>>>>>>> reports.http://sdm.link/zohodev2dev
>>>>>>> _______________________________________________
>>>>>>> Jmol-users mailing list
>>>>>>> Jmol-users@lists.sourceforge.net
>>>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> Robert M. Hanson
>>>>>> Larson-Anderson Professor of Chemistry
>>>>>> St. Olaf College
>>>>>> Northfield, MN
>>>>>> http://www.stolaf.edu/people/hansonr
>>>>>>
>>>>>>
>>>>>> If nature does not answer first what we want,
>>>>>> it is better to take what answer we get.
>>>>>>
>>>>>> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>>>>>>
>>>>>>
>>>>>> ------------------------------------------------------------
>>>>>> ------------------
>>>>>>
>>>>>> _______________________________________________
>>>>>> Jmol-users mailing list
>>>>>> Jmol-users@lists.sourceforge.net
>>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>>>
>>>>>>
>>>>>
>>>>> ------------------------------------------------------------
>>>>> ------------------
>>>>> What NetFlow Analyzer can do for you? Monitors network bandwidth and
>>>>> traffic
>>>>> patterns at an interface-level. Reveals which users, apps, and
>>>>> protocols are
>>>>> consuming the most bandwidth. Provides multi-vendor support for
>>>>> NetFlow,
>>>>> J-Flow, sFlow and other flows. Make informed decisions using capacity
>>>>> planning reports. http://sdm.link/zohodev2dev
>>>>> _______________________________________________
>>>>> Jmol-users mailing list
>>>>> Jmol-users@lists.sourceforge.net
>>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Robert M. Hanson
>>>> Larson-Anderson Professor of Chemistry
>>>> St. Olaf College
>>>> Northfield, MN
>>>> http://www.stolaf.edu/people/hansonr
>>>>
>>>>
>>>> If nature does not answer first what we want,
>>>> it is better to take what answer we get.
>>>>
>>>> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>>>>
>>>>
>>>> ------------------------------------------------------------
>>>> ------------------
>>>> What NetFlow Analyzer can do for you? Monitors network bandwidth and
>>>> traffic
>>>> patterns at an interface-level. Reveals which users, apps, and
>>>> protocols are
>>>> consuming the most bandwidth. Provides multi-vendor support for NetFlow,
>>>> J-Flow, sFlow and other flows. Make informed decisions using capacity
>>>> planning reports. http://sdm.link/zohodev2dev
>>>> _______________________________________________
>>>> Jmol-users mailing list
>>>> Jmol-users@lists.sourceforge.net
>>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>>
>>>>
>>>
>>> ------------------------------------------------------------
>>> ------------------
>>> What NetFlow Analyzer can do for you? Monitors network bandwidth and
>>> traffic
>>> patterns at an interface-level. Reveals which users, apps, and protocols
>>> are
>>> consuming the most bandwidth. Provides multi-vendor support for NetFlow,
>>> J-Flow, sFlow and other flows. Make informed decisions using capacity
>>> planning reports. http://sdm.link/zohodev2dev
>>> _______________________________________________
>>> Jmol-users mailing list
>>> Jmol-users@lists.sourceforge.net
>>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>>
>>>
>>
>>
>> --
>> Robert M. Hanson
>> Larson-Anderson Professor of Chemistry
>> St. Olaf College
>> Northfield, MN
>> http://www.stolaf.edu/people/hansonr
>>
>>
>> If nature does not answer first what we want,
>> it is better to take what answer we get.
>>
>> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>>
>>
>> ------------------------------------------------------------
>> ------------------
>> What NetFlow Analyzer can do for you? Monitors network bandwidth and
>> traffic
>> patterns at an interface-level. Reveals which users, apps, and protocols
>> are
>> consuming the most bandwidth. Provides multi-vendor support for NetFlow,
>> J-Flow, sFlow and other flows. Make informed decisions using capacity
>> planning reports. http://sdm.link/zohodev2dev
>> _______________________________________________
>> Jmol-users mailing list
>> Jmol-users@lists.sourceforge.net
>> https://lists.sourceforge.net/lists/listinfo/jmol-users
>>
>>
>
------------------------------------------------------------------------------
_______________________________________________
Jmol-users mailing list
Jmol-users@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/jmol-users
