Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-13 Thread Steffen Möller
Hi Pierre, On 13.09.20 11:25, Pierre Gruet wrote: > Hi Steffen, > > Le 11/09/2020 à 15:27, Steffen Möller a écrit : >> Hello again, >> >> [...] >> >> and the error prevails when minimizing the invocation as to >> >> >> ~/git/med-team/pigx/pigx-scrnaseq$ /usr/bin/java -XX:ParallelGCThreads=1 >> -Xm

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-13 Thread Pierre Gruet
Hi Steffen, Le 11/09/2020 à 15:27, Steffen Möller a écrit : > Hello again, > > [...] > > and the error prevails when minimizing the invocation as to > > > ~/git/med-team/pigx/pigx-scrnaseq$ /usr/bin/java -XX:ParallelGCThreads=1 > -Xmx4G -Xss16M -Djava.io.tmpdir=/tmp -cp $PICARD_CLASSPATH -j >

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-11 Thread Pierre Gruet
Hi Steffen, Le 11/09/2020 à 02:23, Steffen Möller a écrit : > Hi again, > > On 11.09.20 00:01, Pierre Gruet wrote: >> Hi, >> >> Le 10/09/2020 à 17:11, Andreas Tille a écrit : >>> Hi Steffen, >>> >>> On Thu, Sep 10, 2020 at 03:32:49PM +0200, Steffen Möller wrote: libpicard-java needs an argpa

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-11 Thread Andreas Tille
On Fri, Sep 11, 2020 at 03:27:55PM +0200, Steffen Möller wrote: > ~/git/med-team/pigx/pigx-scrnaseq$ cat > /home/moeller/git/med-team/pigx/pigx-scrnaseq/tests/out/Log/WT_HEK_0h_br1.0.merge_fastq_to_bam. > log > Error: Unable to initialize main class picard.cmdline.PicardCommandLine > Caused by: jav

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-11 Thread Steffen Möller
Hello again, On 11.09.20 02:23, Steffen Möller wrote: > libpicard-java just finished building and testing (and it tested > intensively), but pigx-scrnaseq will need to wait for another day. So, libpicard-java and libbarclay-java are both updated ~/git/med-team/pigx/pigx-scrnaseq$ /usr/bin/java -

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-10 Thread Steffen Möller
Hi again, On 11.09.20 00:01, Pierre Gruet wrote: > Hi, > > Le 10/09/2020 à 17:11, Andreas Tille a écrit : >> Hi Steffen, >> >> On Thu, Sep 10, 2020 at 03:32:49PM +0200, Steffen Möller wrote: >>> libpicard-java needs an argparse class from the barclay library. This >>> was found by the intense buil

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-10 Thread Steffen Möller
Wow! [email ends here since still speachless] On 11.09.20 00:01, Pierre Gruet wrote: > Hi, > > Le 10/09/2020 à 17:11, Andreas Tille a écrit : >> Hi Steffen, >> >> On Thu, Sep 10, 2020 at 03:32:49PM +0200, Steffen Möller wrote: >>> libpicard-java needs an argparse class from the barclay library. Th

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-10 Thread Pierre Gruet
Hi, Le 10/09/2020 à 17:11, Andreas Tille a écrit : > Hi Steffen, > > On Thu, Sep 10, 2020 at 03:32:49PM +0200, Steffen Möller wrote: >> libpicard-java needs an argparse class from the barclay library. This >> was found by the intense build-time testing of the PIGx-scRNAseq. >> ... >> How shall I

Re: libbarclay-java needs update, libpicard-java runtime tests by pigx-scrnaseq

2020-09-10 Thread Andreas Tille
Hi Steffen, On Thu, Sep 10, 2020 at 03:32:49PM +0200, Steffen Möller wrote: > libpicard-java needs an argparse class from the barclay library. This > was found by the intense build-time testing of the PIGx-scRNAseq. > ... > How shall I/we proceed? My immediate plan was to just update locally to >