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Source code for galaxy.tool_shed.galaxy_install.migrate.versions.0011_tools
""" The following tools have been eliminated from the distribution: 1: Profile Annotations for a set of genomic intervals 2: Polymorphism of the Reads 3: Coverage of the Reads in wiggle format 4: Canonical Correlation Analysis 5: Convert Color Space to Nucleotides 6: Compute sequence length 7: Concatenate FASTA alignment by species 8: Filter sequences by length 9: FASTA-to-Tabular converter 10: FASTQSOLEXA-to-FASTA-QUAL extracts sequences and quality scores from FASTQSOLEXA data 11: Kernel Canonical Correlation Analysis 12: Kernel Principal Component Analysis 13: Format mapping data as UCSC custom track 14: Megablast compare short reads against htgs, nt, and wgs databases 15: Parse blast XML output 16: Principal Component Analysis 17: RMAP for Solexa Short Reads Alignment 18: RMAPQ for Solexa Short Reads Alignment with Quality Scores 19: Histogram of high quality score reads 20: Build base quality distribution 21: Select high quality segments 22: Tabular-to-FASTA The tools are now available in the repositories respectively: 1: annotation_profiler 2: blat_coverage_report 3: blat_mapping 4: canonical_correlation_analysis 5: convert_solid_color2nuc 6: fasta_compute_length 7: fasta_concatenate_by_species 8: fasta_filter_by_length 9: fasta_to_tabular 10: fastqsolexa_to_fasta_qual 11: kernel_canonical_correlation_analysis 12: kernel_principal_component_analysis 13: mapping_to_ucsc 14: megablast_wrapper 15: megablast_xml_parser 16: principal_component_analysis 17: rmap 18: rmapq 19: short_reads_figure_high_quality_length 20: short_reads_figure_score 21: short_reads_trim_seq 22: tabular_to_fasta from the main Galaxy tool shed at http://toolshed.g2.bx.psu.edu and will be installed into your local Galaxy instance at the location discussed above by running the following command. """[docs]def upgrade(migrate_engine): print(__doc__)[docs]def downgrade(migrate_engine): pass