phyluce 1.6.8 94.78% Success

Executables

phyluce_align_add_missing_data_designators Succeeded phyluce_align_convert_degen_bases Succeeded phyluce_align_convert_one_align_to_another Succeeded phyluce_align_explode_alignments Succeeded phyluce_align_extract_taxa_from_alignments Succeeded phyluce_align_extract_taxon_fasta_from_alignments Succeeded phyluce_align_filter_alignments Succeeded phyluce_align_filter_characters_from_alignments Succeeded phyluce_align_format_concatenated_phylip_for_paml Succeeded phyluce_align_format_nexus_files_for_mrbayes Succeeded phyluce_align_format_nexus_files_for_raxml Succeeded phyluce_align_get_align_summary_data Succeeded phyluce_align_get_aligns_partitioned_by_cluster Succeeded phyluce_align_get_bed_from_lastz Succeeded phyluce_align_get_gblocks_trimmed_alignments_from_untrimmed Succeeded phyluce_align_get_incomplete_matrix_estimates Succeeded phyluce_align_get_indels_from_alignments Succeeded phyluce_align_get_informative_sites Succeeded phyluce_align_get_only_loci_with_min_taxa Succeeded phyluce_align_get_ry_recoded_alignments Succeeded phyluce_align_get_smilogram_from_alignments Succeeded phyluce_align_get_taxon_locus_counts_in_alignments Succeeded phyluce_align_get_trimal_trimmed_alignments_from_untrimmed Succeeded phyluce_align_move_align_by_conf_file Succeeded phyluce_align_get_trimmed_alignments_from_untrimmed Succeeded phyluce_align_output_list_of_taxon_counts Succeeded phyluce_align_parallel_sate Succeeded phyluce_align_randomly_sample_and_concatenate Succeeded phyluce_align_reduce_alignments_with_raxml Succeeded phyluce_align_remove_empty_taxa Succeeded phyluce_align_remove_locus_name_from_nexus_lines Succeeded phyluce_align_screen_alignments_for_problems Succeeded phyluce_align_seqcap_align Succeeded phyluce_align_split_concat_nexus_to_loci Succeeded phyluce_assembly_assemblo_abyss Succeeded phyluce_assembly_assemblo_spades Succeeded phyluce_assembly_assemblo_trinity Succeeded phyluce_assembly_assemblo_velvet Succeeded phyluce_assembly_copy_trinity_symlinks Succeeded phyluce_assembly_explode_get_fastas_file Succeeded phyluce_assembly_extract_contigs_to_barcodes Succeeded phyluce_assembly_get_bed_for_genome_enabled_taxon Succeeded phyluce_assembly_filter_seqs_from_fastas Succeeded phyluce_assembly_get_fasta_lengths Succeeded phyluce_assembly_get_fastas_from_match_counts Succeeded phyluce_assembly_get_fastq_lengths Succeeded phyluce_assembly_get_match_counts Succeeded phyluce_assembly_get_trinity_coverage Succeeded phyluce_assembly_get_trinity_coverage_for_uce_loci Succeeded phyluce_assembly_match_contigs_to_barcodes Failed phyluce_assembly_match_contigs_to_probes Succeeded phyluce_assembly_parse_trinity_coverage_for_uce_loci_log Succeeded phyluce_assembly_parse_trinity_coverage_log Succeeded phyluce_assembly_screen_probes_for_dupes Succeeded phyluce_genetrees_generate_multilocus_bootstrap_count Succeeded phyluce_genetrees_get_tree_counts Succeeded phyluce_genetrees_get_mean_bootrep_support Succeeded phyluce_genetrees_locus_stats Succeeded phyluce_genetrees_order_gene_tree_file Failed phyluce_genetrees_phybase Failed phyluce_genetrees_reformat_raxml_output Succeeded phyluce_genetrees_reformat_trees Succeeded phyluce_genetrees_rename_tree_leaves Succeeded phyluce_genetrees_run_raxml_bootstraps Succeeded phyluce_genetrees_run_raxml_genetrees Succeeded phyluce_genetrees_run_raxml_multilocus_bootstraps Succeeded phyluce_genetrees_sort_multilocus_bootstraps Succeeded phyluce_genetrees_split_models_from_genetrees Succeeded phyluce_ncbi_chunk_fasta_for_ncbi Succeeded phyluce_ncbi_example_prep Failed phyluce_ncbi_prep_uce_align_files_for_ncbi Succeeded phyluce_ncbi_prep_uce_align_files_for_ncbi_targeted_locus_db Succeeded phyluce_ncbi_prep_uce_fasta_files_for_ncbi Failed phyluce_probe_easy_lastz Succeeded phyluce_probe_get_clusters_from_bed Succeeded phyluce_probe_get_clusters_from_taxa Succeeded phyluce_probe_get_genome_sequences_from_bed Succeeded phyluce_probe_get_locus_bed_from_lastz_files Succeeded phyluce_probe_get_multi_fasta_table Succeeded phyluce_probe_get_multi_merge_table Succeeded phyluce_probe_get_probe_bed_from_lastz_files Succeeded phyluce_probe_get_screened_loci_by_proximity Succeeded phyluce_probe_get_subsets_of_tiled_probes Succeeded phyluce_probe_get_tiled_probe_from_multiple_inputs Succeeded phyluce_probe_get_tiled_probes Succeeded phyluce_probe_query_multi_fasta_table Succeeded phyluce_probe_query_multi_merge_table Succeeded phyluce_probe_reconstruct_uce_from_probe Succeeded phyluce_probe_remove_duplicate_hits_from_probes_using_lastz Succeeded phyluce_probe_remove_overlapping_probes_given_config Succeeded phyluce_probe_run_multiple_lastzs_sqlite Succeeded phyluce_probe_slice_sequence_from_genomes Succeeded phyluce_probe_strip_masked_loci_from_set Succeeded phyluce_snp_bwa_align Succeeded phyluce_snp_bwa_multiple_align Succeeded phyluce_snp_convert_vcf_to_snapp Succeeded phyluce_snp_convert_vcf_to_structure Succeeded phyluce_snp_find_snps_in_bed_interval Succeeded phyluce_snp_get_dbsnp_freq_stats Succeeded phyluce_snp_get_dbsnp_variability_for_all_uces Succeeded phyluce_snp_get_from_uce_alignments Failed phyluce_snp_phase_uces Succeeded phyluce_snp_prep_interval_list_file_for_picard Succeeded phyluce_snp_screen_phased_alignments Succeeded phyluce_snp_screen_vcf_files Succeeded phyluce_snp_summarize_vcf_file Succeeded phyluce_utilities_cleanup_trinity Succeeded phyluce_utilities_combine_reads Succeeded phyluce_utilities_filter_bed_by_fasta Succeeded phyluce_utilities_get_bed_from_fasta Succeeded phyluce_utilities_merge_multiple_gzip_files Succeeded phyluce_utilities_merge_next_seq_gzip_files Succeeded phyluce_utilities_replace_many_links Succeeded phyluce_utilities_sample_reads_from_files Succeeded phyluce_utilities_unmix_fasta_reads Succeeded