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Clinical-Genomics / MIP
100%
master: 100%

DEFAULT BRANCH: master
Build:
LAST BUILD BRANCH: 1986/merge
Repo Added 08 May 2018 09:07AM UTC
Total Files 314
# Builds 4824 Last
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LAST BUILD ON BRANCH release/v9.1.0
branch: release/v9.1.0
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  • release/v9.1.0
  • develop
  • master
  • no_samtools_view
  • feature/read_install_config
  • feature/bwa_mem2_update
  • feature/dv_glnexus_logic
  • feature/plink_fixes
  • 1697/merge
  • release/v9.0.5
  • 1711/merge
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  • feature/vt_decompose_to_norm
  • rm_path_2
  • 1712/merge
  • feature/conda_perl_install
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  • 1714/merge
  • feature/vt_decompose_to_norm_expansionhunter
  • update-codeowners
  • 1715/merge
  • feature/vt_uniq_to_norm_plink
  • v9.0.5
  • release/mip9.0.5
  • 1716/merge
  • 1717/merge
  • feature/vt_decompose_to_norm_svcombinevariantcallsets
  • 1718/merge
  • feature/mip_container
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  • 1721/merge
  • feature/setup_script_gpu
  • feature/rm_mpileup
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  • feature/container_install
  • 1724/merge
  • feature/chanjo_docker
  • 1725/merge
  • feature/check_mip_executable
  • 1726/merge
  • feature/rm_check_future_filesystem_for_directory
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  • 1729/merge
  • feature/rm_a_dir_from_tests
  • feature/rm_delete_file
  • 1730/merge
  • feature/replace_mip_bind
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  • 1732/merge
  • hotfix/slurm_jobids
  • v9.0.6
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  • feature/check_vcfparser_cli
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  • feature/vcfparser_fix
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  • feature/star_options
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  • v9.1.0
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  • feature/mip_executable
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  • feature/median_coverage
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  • feature/generate_contig_interval_file
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  • feature/build_docker
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  • feature/pre-commit
  • feature/container_constants
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  • 1749/merge
  • feature/doc
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  • feature/rm_module_version
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  • deeptrio_install
  • release/9.1.1
  • 1752/merge
  • v9.1.1
  • feature/rm_file_format_mip
  • 1753/merge
  • feature/deeptrio_install
  • feature/varg_docker
  • 1754/merge
  • feature/slurm_mip
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  • feature/load_pli_file
  • feature/bwakit
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  • feature/rm_strict
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  • feature/data_constraint
  • feature/markduplicates_mem
  • release/v9.1.2
  • feature/create_vep_synonyms_file
  • 1761/merge
  • 1762/merge
  • feature/loqusdb_headers
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  • 1764/merge
  • feature/broad_aln
  • feature/get_exome_target_bed_file
  • 1765/merge
  • feature/get_path_entries
  • 1766/merge
  • feature/get_gatk_intervals
  • 1767/merge
  • feature/set_merged_infile_prefix
  • 1768/merge
  • feature/parse_download_reference_parameter
  • 1769/merge
  • feature/get_merged_infile_prefix
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  • 1771/merge
  • feature/set_conda_path
  • 1772/merge
  • feature/get_package_source_env_cmds
  • 1773/merge
  • feature/rtg_vcfeval_update
  • 1774/merge
  • get_recipe_resources
  • 1775/merge
  • 1776/merge
  • feature/set_rankvariants_ar
  • feature/set_container_bind_paths
  • 1777/merge
  • feature/set_programs_for_installation
  • 1778/merge
  • feature/set_recipe_bwa_mem
  • 1779/merge
  • feature/set_recipe_deepvariant
  • 1780/merge
  • feature/turn_off_deeptrio
  • 1781/merge
  • feature/update_dynamic_config_parameters
  • 1783/merge
  • v9.1.2
  • feature/deeptrio_rollback
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  • 1782/merge
  • feature/set_recipe_gatk_variantrecalibration
  • 1785/merge
  • feature/external_data
  • 1789/merge
  • feature/update_with_dynamic_config_parameters
  • 1790/merge
  • feature/set_recipe_on_analysis_type
  • feature/set_recipe_star_aln
  • 1791/merge
  • feature/rna_markduplicates
  • 1793/merge
  • feature/set_io_files
  • 1794/merge
  • feature/get_io_files
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  • feature/parse_io_outfiles
  • 1796/merge
  • feature/rna_fixes
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  • release/v9.1.3
  • feature/build_stream_file_cmd
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  • feature/get_sampling_fastq_files
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  • feature/gencode_bed_file
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  • feature/get_number_of_male_reads
  • 1805/merge
  • feature/update_gender_info
  • 1807/merge
  • 1808/merge
  • feature/gres_update
  • feature/dv_default_from_gpu_to_cpu
  • 1809/merge
  • 1810/merge
  • feature/parse_fastq_for_gender
  • delete-extra-docker-workflow
  • 1811/merge
  • feature/metric_deliverables
  • 1812/merge
  • v9.1.3
  • feature/glnexus_mem_reqs
  • 1813/merge
  • feature/merge_v9.1.3
  • 1814/merge
  • feature/genbank_haplogroup
  • 1815/merge
  • 1816/merge
  • feature/cleanup_gent-db
  • feature/stranger_update
  • 1817/merge
  • feature/megafusion
  • 1819/merge
  • feature/rename_star_fusion_out
  • 1820/merge
  • feature/update_htslib
  • feature/case_fusions
  • 1822/merge
  • 1821/merge
  • feature/recipe_template
  • 1823/merge
  • feature/update_picard
  • 1825/merge
  • feature/rm_split_fastq_file
  • 1826/merge
  • feature/add_percentage_mapped_reads_from_samtool
  • 1829/merge
  • feature/serial_fusion_calling
  • 1830/merge
  • feature/update_tiddit
  • 1831/merge
  • feature/rename_arriba_contigs
  • 1832/merge
  • 1833/merge
  • feature/update_sambamba
  • 1835/merge
  • feature/reference_check_vt
  • docker_build_n_push_action
  • 1836/merge
  • feature/pdfmerger
  • 1838/merge
  • feature/generate_readable_commands
  • feature/bwa-mem2
  • 1839/merge
  • feature/update_smncopynumbercaller
  • 1840/merge
  • feature/update_cyrius
  • 1841/merge
  • 1842/merge
  • feature/deepvariant_housekeeper_integration
  • 1843/merge
  • 1844/merge
  • feature/clinical_fusion_report
  • feature/bcftools_norm_fix_reference
  • 1845/merge
  • feature/bwa-mem2_update
  • feature/revert_generate_readable_commands
  • 1847/merge
  • feature/splice_junction_tracks
  • 1848/merge
  • 1849/merge
  • feature/rename_quant_file
  • feature/rna_resource_bump
  • 1850/merge
  • feature/splice_track_fix
  • 1852/merge
  • 1853/merge
  • feature/sambamba_rollback
  • 1854/merge
  • 1855/merge
  • feature/update_telomerecat
  • feature/remove_vt_install
  • 1856/merge
  • 1857/merge
  • feature/fix_gatk_combine_cli
  • feature/update_svdb
  • 1858/merge
  • feature/update_gatk
  • feature/rna_vcfparser
  • 1860/merge
  • 1861/merge
  • feature/star_update
  • 1862/merge
  • 1863/merge
  • feature/update_vep
  • feature/deliverable_update
  • 1864/merge
  • feature/arriba_update
  • 1865/merge
  • feature/rna_genome_ref
  • 1866/merge
  • feature/megafusion_update
  • 1867/merge
  • feature/update_starfusion
  • feature/update_reference
  • 1868/merge
  • 1869/merge
  • feature/gencode_transcripts
  • 1871/merge
  • 1872/merge
  • feature/bedtools
  • feature/rna_doc
  • 1873/merge
  • feature/delly_update
  • 1874/merge
  • feature/glnexus
  • 1875/merge
  • 1876/merge
  • feature/htslib
  • feature/multiqc
  • 1877/merge
  • feature/bcftools_norm_cov
  • 1878/merge
  • feature/preseq
  • 1879/merge
  • 1880/merge
  • feature/rseqc
  • feature/rtg-tools
  • 1881/merge
  • 1882/merge
  • feature/salmon
  • feature/upd
  • 1883/merge
  • feature/update_rna_template
  • 1884/merge
  • 1885/merge
  • feature/chromograph
  • 1886/merge
  • feature/blobfish
  • 1887/merge
  • feature/rseqc_build
  • 1888/merge
  • feature/bcftools_norm_update
  • 1890/merge
  • feature/rna_qc_mestrics
  • 1891/merge
  • feature/clinvar_ref
  • 1892/merge
  • release/10.0.0
  • 1893/merge
  • feature/fix_deepvariant_version_typo
  • 1894/merge
  • feature/no_atomize
  • 1895/merge
  • feature/bcftools_norm_recipe
  • 1896/merge
  • 1898/merge
  • feature/info_download
  • 1899/merge
  • feature/rna_mt_contig
  • feature/norm_rna_and_mt
  • 1900/merge
  • feature/recipe_bind_path_mod
  • 1901/merge
  • feature/norm_glnexus
  • 1902/merge
  • 1903/merge
  • feature/rollback_telomercat
  • feature/vcfparser_recipe_fix
  • 1907/merge
  • feature/cadd_index
  • 1908/merge
  • feature/htslib_rollback
  • 1909/merge
  • 1910/merge
  • feature/bcftools_base
  • v10.0.0
  • 1911/merge
  • release/10.0.1
  • feat/stranger_update
  • 1915/merge
  • v10.0.1
  • 1916/merge
  • feature/gnomad_3.1.1_download
  • release/10.0.2
  • 1918/merge
  • 1919/merge
  • feature/hmtnote
  • feature/gnomad_mt
  • 1920/merge
  • v10.0.2
  • 1922/merge
  • 1921/merge
  • release/10.0.3
  • 1923/merge
  • v10.0.3
  • 1924/merge
  • feature/set_resources
  • 1925/merge
  • feature/update_download_paths
  • 1926/merge
  • 1927/merge
  • feature/qc_collect_deliverable
  • feature/start_after_recipe
  • 1929/merge
  • feature/start_after_recipe_flag
  • 1930/merge
  • feature/gnu_awk
  • 1931/merge
  • v10.1.0
  • v10.2.0
  • 1932/merge
  • feature/mitodel
  • 1933/merge
  • feature/found_in_tag
  • 1936/merge
  • 1937/merge
  • feature/deactivate_gatk
  • update_software
  • 1939/merge
  • feature/limit_qc
  • 1940/merge
  • 1941/merge
  • feature/ghcr_uri
  • feature/update_glnexus_uri
  • 1942/merge
  • 1943/merge
  • feat/fix_glnexus_permission
  • 1946/merge
  • hmtnote/quickfix
  • hotfix/mt_filter
  • 1947/merge
  • feature/local_images
  • 1950/merge
  • v10.2.1
  • 1952/merge
  • feature/sv_freq_filter
  • 1953/merge
  • 1949/merge
  • feature/references
  • 1955/merge
  • feature/hmtnote_version_regex
  • feature/fixing_loqus_headers
  • 1956/merge
  • feature/trim_mt_anno_whitespace
  • 1957/merge
  • feature/change_to_bcftools_concat
  • 1958/merge
  • hotfix/add_missing_qc_value
  • 1959/merge
  • v10.2.2
  • 1960/merge
  • 1962/merge
  • feature/more_qc_metrics
  • 1964/merge
  • feature/increased_AF_cutoff
  • 1965/merge
  • feature/paper_and_redirection
  • feature/fixing_test_coverage
  • 1966/merge
  • release/11.0.0
  • 1967/merge
  • feature/gens
  • gens
  • 1972/merge
  • feature/gens_install
  • 1973/merge
  • release/10.2.3
  • 1974/merge
  • v10.2.3
  • 1975/merge
  • feature/gatk_for_mt
  • release/10.2.4
  • 1976/merge
  • v10.2.4
  • 1978/merge
  • 1979/merge
  • release/10.2.5
  • v10.2.5
  • 1980/merge
  • v11.0.0
  • 1984/merge
  • release/11.0.1
  • 1985/merge
  • v11.0.1
  • 1986/merge

7 Dec 2020 - 13:19 coverage remained the same at 100.0%
77e7d1854

push

github-actions

jemten
Merge branch 'develop' of https://github.com/Clinical-Genomics/MIP into release/v9.1.0

29586 of 29586 relevant lines covered (100.0%)

155.77 hits per line

Relevant lines Covered
29586 RELEVANT LINES 29586 COVERED LINES
Build:
155.77 HITS PER LINE
Source Files on release/v9.1.0
  • Tree
  • List 314
  • Changed 287
  • Source Changed 241
  • Coverage Changed 286
Coverage ∆ File Lines Relevant Covered Missed Hits/Line

Recent Builds

Builds Branch Coverage Commit Committer Type Time Via
77e7d1854 release/v9.1.0
100.0
Merge branch 'develop' of https://github.com/Clinical-Genomics/MIP into release/v9.1.0 jemten push 07 Dec 2020 01:19PM UTC github-actions
df33665c2 release/v9.1.0
100.0
feat(chromograph_rhoviz): changed to cp from mv jemten push 04 Dec 2020 09:55AM UTC github-actions
33579b703 release/v9.1.0
100.0
Applying suggestions from code review jemten push 03 Dec 2020 02:53PM UTC github-actions
61acdebc1 release/v9.1.0
100.0
changes after code review jemten push 02 Dec 2020 01:01PM UTC github-actions
aece918a1 release/v9.1.0
100.0
feat(chromograph): rename infiles prior to launching jemten push 01 Dec 2020 02:02PM UTC github-actions
See All Builds (4823)
  • Repo on GitHub
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