If you use Mac OS X >= 10.6, use gnu tar (/usr/bin/gnutar) to avoid PAX headers. It's also important to rename (shorten) long file names (>= 100 characters) in the distribution.
Error: ./PaxHeaders.1563/CLIPSeqTools-0.1.0,./PaxHeaders.1563/CLIPSeqTools-0.1.0,CLIPSeqTools-0.1.0/PaxHeaders.1563/t,CLIPSeqTools-0.1.0/PaxHeaders.1563/t,CLIPSeqTools-0.1.0/t/PaxHeaders.1563/data,CLIPSeqTools-0.1.0/t/PaxHeaders.1563/data,CLIPSeqTools-0.1.0/t/data/PaxHeaders.1563/alignments2.db,CLIPSeqTools-0.1.0/t/data/PaxHeaders.1563/alignments2.db,CLIPSeqTools-0.1.0/t/data/PaxHeaders.1563/transcripts.gtf,CLIPSeqTools-0.1.0/t/data/PaxHeaders.1563/transcripts.gtf,CLIPSeqTools-0.1.0/t/data/PaxHeaders.1563/alignments1.db,CLIPSeqTools-0.1.0/t/data/PaxHeaders.1563/alignments1.db,CLIPSeqTools-0.1.0/PaxHeaders.1563/LICENSE,CLIPSeqTools-0.1.0/PaxHeaders.1563/LICENSE,CLIPSeqTools-0.1.0/PaxHeaders.1563/META.yml,CLIPSeqTools-0.1.0/PaxHeaders.1563/META.yml,CLIPSeqTools-0.1.0/PaxHeaders.1563/TODO.md,CLIPSeqTools-0.1.0/PaxHeaders.1563/TODO.md,CLIPSeqTools-0.1.0/PaxHeaders.1563/dist.ini,CLIPSeqTools-0.1.0/PaxHeaders.1563/dist.ini,CLIPSeqTools-0.1.0/PaxHeaders.1563/lib,CLIPSeqTools-0.1.0/PaxHeaders.1563/lib,CLIPSeqTools-0.1.0/lib/PaxHeaders.1563/CLIPSeqTools,CLIPSeqTools-0.1.0/lib/PaxHeaders.1563/CLIPSeqTools,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/PlotApp,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/PlotApp,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/distribution_on_introns_exons.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/distribution_on_introns_exons.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/reads_long_gaps_size_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/reads_long_gaps_size_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/size_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/size_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/cluster_size_and_score_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/cluster_size_and_score_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/nucleotide_composition.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/nucleotide_composition.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/conservation_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/conservation_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/distribution_on_genic_elements.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/distribution_on_genic_elements.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/libraries_relative_read_density.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/libraries_relative_read_density.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/scatterplot.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/scatterplot.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/genomic_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PlotApp/PaxHeaders.1563/genomic_distribution.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/App.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/App.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/PreprocessApp.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/PreprocessApp.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/Role,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/Role,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/PaxHeaders.1563/Option,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/PaxHeaders.1563/Option,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Library.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Library.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/ReferenceLibrary.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/ReferenceLibrary.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Plot.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Plot.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Transcripts.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Transcripts.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/OutputPrefix.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/OutputPrefix.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Genes.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/Role/Option/PaxHeaders.1563/Genes.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/PlotApp.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/PlotApp.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/CompareApp,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/PaxHeaders.1563/CompareApp,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/CompareApp/PaxHeaders.1563/libraries_overlap_stats.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/CompareApp/PaxHeaders.1563/libraries_overlap_stats.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTools/CompareApp/PaxHeaders.1563/libraries_relative_read_density.pm,CLIPSeqTools-0.1.0/lib/CLIPSeqTool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