PeakSeq problem

[Mashin]

I would appreciate any help or comment if anybody experienced same problem.

I am trying to analyze ChIPseq data with PeakSeq v1.1 on MacOS.
I provided mapability file from http://archive.gersteinlab.org/proj/...Map/H.sapiens/ and I created chromosome list file by putting chromosome names on separate line (chr1, chr2, chr3,..)
Processing SAM file with -preprocess option seemed work fine and .bin files were created for each chromosome.
The problem comes in next step when I try to run it with -peak_select option.
It returns weird kind of error message:

PeakSeq -peak_select config.dat
 for reading.n Chromosome_list_HG.txt

Anybody has an idea what can cause this?


here is the config.dat file I am using:

# Experiment id is used as a prefix to the output file name.
Experiment_id IP_vs_Inp

# Chromosome ID list file, is used to generate data file paths.
chromosome_list_file Chromosome_list_HG.txt

# Enrichment fragment length For tag extension, this is the value of average fragment length.
Enrichment_fragment_length 200

# Target FDR in the simulations.
target_FDR 0.05

# Number of simulations performed while estimating the putative peaks.
N_Simulations 10

# Minimum distance between consecutive peaks
Minimum_interpeak_distance 200

# Mappability file that includes the uniquely mappable number of nucleotides per window for each chromosome.
Mappability_map_file Mapability_HG.txt

# The directory that contains the preprocessed ChIP-Seq reads, can specify multiple directories to pool reads from multiple source (e.g. replicates)
ChIP_Seq_reads_data_dirs PeakSeq_IP

# The directory that contains the preprocessed Input (control) experiment reads. (Multiple directories allowed)
Input_reads_data_dirs PeakSeq_Inp

# Seed for pseudo-random number generator. This is necessary for simulated background option (specified below).
#Simulation_seed 1234567

# Q-value threshold applied on the final set of peaks.
max_Qvalue 0.05

# There are currently two models for simulating the background for threshold selection
# Simulated background is the simulation based method that is explained in the PeakSeq paper.
# Poisson background uses a simple Poisson background with mean estimated from the read statistics. This option is still experimental but it is much faster than the simulated background option.
# Background_model Poisson
Background_model Simulated