[Nemo2-user] New release Nemo v 2.3.51

[Frederic G. <gui...@gm...>]

Dear all,

Nemo v2.3.51 has just been released!

See the changelog below

I recommend updating to the new version.

Have fun with it!

Post comments/questions on the mailing list.

Best
Fred Guillaume


N E M O v2.3.51 [27 Sept 2017]

This new release fixes a few bugs and add new functionalities to Nemo. It
also introduces new parameters and updates error and warning messages. The
MPI layer has also been updated and is now fully funcitonal.

New parameters:

- "disperse" LCE:
"dispersal_lattice_rows": sets the number of rows of the 2D lattice
"dispersal_lattive_columns": sets the number of columns of the 2D lattice

- "delet" trait:
"delet_effects": a matrix holding the fitness effects of the mutations
"delet_backmutation_rate": rate of backward mutations, reversing the locus
    state to the wild type (with fitness = 1); is 0 by default

- "population" component:
"source_parameter_override": sets parameter value from value stored in a
    binary source files, overriding the current simulation parameter values

CHANGELOG v2.3.51

FIX: segfault when input FSTAT file contained allele '0'; allele '0' not
      accepted anymore in input genotype files

FIX: names of trait genetic covariance stats for trait 'quanti' corrected
      in stat output files

FIX: parameter with multiple external parameter files specified in the input
      file now correctly treated as a sequential parameter

FIX: output binary files can now be > 2.1GB; however, file format is NOT
      COMPATIBLE with older versions of Nemo.

FIX: parameter temporal values correctly reset between different simulations

ADD: dispersal lattice model (dispersal_model 4) now accepts arbitrary
      number of rows and columns (previously limited to square grids)

ADD: backward mutation rate in deleterious-mutation trait (delet)

ADD: direct setting of mutation fitness effect in deleterious-mutation trait
      with new parameter "delet_effects"; could only be set randomly from a
      specified distribution so far

ADD: possibility to load random deleterious mutation effects from binary
      source files via parameter "source_parameter_override"

ADD: "source_parameter_override" to set parameter value from binary source
      files, overriding the loading simulation parameter values

ADD: PLINK output file format for neutral markers (.ped, .fam, .map, .bin)

ADD: new warnings at start when nemo finds orphan parameters in the input
      parameter file (i.e., parameters that don't belong to any component)

ADD: possibility to execute an external shell script after each replicates
      instead of after all simulations in a run.

ADD: locus-specific alleles values of quantitative trait now recycled across
      loci if less values than number of loci provided in input

MOD: the fitness effects of the deleterious mutations are now saved in the
      `.log' file of the simulation after being randomly set during setup

MOD: runtime messaging about existing simulation files, and other messages
      have been refreshed and updated

MOD: MPI version and random number generator adjusted for SPRNG v5.0; MPI
      version fully functional!



/fg