Eric Deveaud

Hello, please find enclosed some modifications that allows creation of libBlight. either static either dynamic. alos added installation rule regards Eric

addss.pl :: blastpgp failure due to incorrect input file name

1

hello while testing hhsuite/3.2.0 I have the following error with addss.pl ``` bigmess:hhsuite/3.2.0 > addss.pl out.a3m $ cp out.a3m /tmp/dHAvg131b1/A2cQmTLZdi.in.a3m Filtering alignment to diversity 7 ... $ hhfilter -v 1...

Hello, ``` [gensoft@55c39a5bf82f beast-mcmc-1.10.5-23570d1]$ beast -citations_file foo BEAST v1.10.5 Prerelease #23570d1, 2002-2019 Bayesian Evolutionary Analysis Sampling Trees Designed and developed by Alexei J. Drummond, Andrew Rambaut and Marc A. Suchard...

Hello while building, on a minimalistic linux docker, beast-mcmc (commit 2589e1ae047aa1e25da78cd26024d3fca2c834ed) using `ant/1.10.7` and `graalvm/ce-java8-20.0.0` I had to patch the `build.xml` definition file for javac secification including `` maybee it...

Hello after build beast from the last beast-mcmc git repo (commit 2589e1ae047aa1e25da78cd26024d3fca2c834ed) build was performed using ant/1.10.7 graalvm/ce-java8-20.0.0 I tried to run randoms functional tests using or not beagle-lib/3.1.2 from...

please respect TMPDIR envar if available

1

Hello, while testing ete-3.1.2 command line tools on our cluster I had some disk/IO error see: ``` loaded:0010000 skipped:0000000 scanned:0010000 14.7% WRNG - disk I/O error loaded:0020000 skipped:0000000 scanned:0020000 29.5%...

Hello, I'm trying to dig the etee external tools dependencies. and found some conflicting informations. `meta.yaml` extracted from https://anaconda.org/etetoolkit/ete_toolchain/3.0.0/download/linux-64/ete_toolchain-3.0.0-h73706c9_0.tar.bz2 gives the following list for externale tools (NB I removed system...

version detection problem when conflicting dependencies

1

hello, just to let you know that when ```Possibly conflicting dependencies found``` the version detection breaks see: ```` tars-900:scratch/gensoft_tests > pipdeptree --user Warning!!! Possibly conflicting dependencies found: * h5py==2.8.0 -...

Cant open file: _clustered.clstr

3

Hello, running Roary/1.13.0 we have a problem running roary, it stops with the following error message: ``` Iteratively run cd-hit Cant open file: _clustered.clstrParallel all against all blast ``` after...

Hello, circlator/dnaa.py use wget to get sequences from uniprot. wget is not available on most linux distro by default, curl seems more common. using built in python download mechanism will...