Ecosyste.ms: Issues

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GitHub / MultiQC/MultiQC issues and pull requests

#2971 - GTDB-Tk

Issue - State: open - Opened by harper357 6 days ago - 1 comment
Labels: module: new

#2969 - Violin: add dt to Dataset objects instead of main_table_dt

Pull Request - State: open - Opened by vladsavelyev 7 days ago
Labels: core: refactoring

#2968 - Violin: add dt to Dataset objects instead of main_table_dt

Pull Request - State: closed - Opened by vladsavelyev 7 days ago
Labels: core: refactoring

#2967 - featurecounts: missing section name and anchor

Pull Request - State: closed - Opened by vladsavelyev 7 days ago
Labels: bug: module

#2966 - AI: stream detailed summaries

Pull Request - State: open - Opened by vladsavelyev 7 days ago

#2965 - bcl2fastq: fix missing `R1_*`/`R2_*` metrics

Pull Request - State: closed - Opened by sschmeier 7 days ago
Labels: bug: module

#2964 - Critical bug: bcl2fastq module broken

Issue - State: closed - Opened by sschmeier 7 days ago - 2 comments
Labels: bug: module

#2963 - Pin kaleido to 0.2.1 (0.4.1 requires external browser)

Pull Request - State: closed - Opened by vladsavelyev 7 days ago
Labels: core: back end

#2962 - Docker build: add workflow_dispatch, do not push on pull_request

Pull Request - State: closed - Opened by vladsavelyev 7 days ago
Labels: core: infrastructure

#2962 - Docker build: add workflow_dispatch, do not push on pull_request

Pull Request - State: closed - Opened by vladsavelyev 7 days ago
Labels: core: infrastructure

#2961 - Nanostat: add general stats columns

Pull Request - State: closed - Opened by vladsavelyev 10 days ago
Labels: module: enhancement

#2960 - Error when parsing cutadapt json file

Issue - State: closed - Opened by jwtobias 10 days ago - 2 comments
Labels: bug: module

#2960 - Error when parsing cutadapt json file

Issue - State: closed - Opened by jwtobias 10 days ago - 2 comments
Labels: bug: module

#2959 - Natural sort for sample sorting

Pull Request - State: closed - Opened by vladsavelyev 10 days ago
Labels: core: back end

#2958 - Build Docker image in PRs

Pull Request - State: closed - Opened by vladsavelyev 12 days ago
Labels: core: infrastructure

#2957 - Fix `plot_type: violin` in custom content

Pull Request - State: closed - Opened by vladsavelyev 12 days ago
Labels: custom-content

#2956 - Table scatter mini-plots: fix rounding and range

Pull Request - State: closed - Opened by vladsavelyev 13 days ago
Labels: core: front end

#2955 - Configure `custom_table_header_config`: fix docs, support both the old and the new ways

Pull Request - State: closed - Opened by vladsavelyev 14 days ago
Labels: custom-content

#2953 - Fix Docker CI for forks: skip login step

Pull Request - State: closed - Opened by vladsavelyev 14 days ago
Labels: core: infrastructure

#2952 - Clean up `make_modules_docs.py` and fix CHANGELOG md incompatibilities

Pull Request - State: closed - Opened by vladsavelyev 17 days ago
Labels: documentation

#2949 - Allow "natural sort" for sample names

Issue - State: closed - Opened by bounlu 21 days ago - 1 comment
Labels: core: back end

#2948 - reference with a coverageData >= 20X (Qualimap)

Issue - State: closed - Opened by serge2016 23 days ago - 2 comments

#2947 - Improve MultiQC container size

Issue - State: closed - Opened by LouisLeNezet 25 days ago - 1 comment
Labels: core: infrastructure

#2946 - Qualimap: Clarify the direction of the transcript in coverage plot

Pull Request - State: closed - Opened by pontushojer 25 days ago
Labels: module: enhancement

#2945 - Fastqe

Pull Request - State: open - Opened by edmundmiller 25 days ago - 2 comments

#2944 - FASTQE

Issue - State: open - Opened by adamrtalbot 25 days ago - 4 comments
Labels: module: new

#2943 - Scatter plot from custom table too zoomed in

Issue - State: closed - Opened by Redmar-van-den-Berg 25 days ago - 2 comments
Labels: core: front end

#2942 - Violin plot from custom table error at 101 samples

Issue - State: closed - Opened by Redmar-van-den-Berg 25 days ago - 1 comment

#2941 - Sample grouping: workaround for Safari missing visibility: collapse

Pull Request - State: closed - Opened by vladsavelyev 26 days ago
Labels: core: front end

#2940 - Specify colours for various categories in the newer version of MultiQC

Issue - State: closed - Opened by sejmodha 27 days ago - 1 comment

#2938 - Document use of display to show plots in notebooks

Pull Request - State: closed - Opened by vladsavelyev 28 days ago
Labels: documentation

#2937 - Qualimap: fix parsing ∞ value

Pull Request - State: closed - Opened by vladsavelyev 29 days ago
Labels: bug: module

#2936 - Cutadapt: fix for null values from r2 data

Pull Request - State: closed - Opened by vladsavelyev 29 days ago
Labels: bug: module

#2935 - File line block iterator: fix reading long lines that do not fit one…

Pull Request - State: closed - Opened by vladsavelyev 29 days ago
Labels: core: back end

#2934 - nanoq: Change lineplots for barplots

Pull Request - State: closed - Opened by dialvarezs about 1 month ago - 4 comments
Labels: module: enhancement

#2933 - Add module Haplocheck

Pull Request - State: closed - Opened by peterpru about 1 month ago - 3 comments
Labels: module: new, waiting: changes

#2932 - New module Haplocheck

Issue - State: closed - Opened by peterpru about 1 month ago - 2 comments
Labels: module: new

#2931 - bug: Import of qualimap Results - could not convert string to float: '∞'

Issue - State: closed - Opened by KuechlerO about 1 month ago - 1 comment

#2930 - Docs: Add basic page about WASM

Issue - State: closed - Opened by ewels about 1 month ago - 2 comments
Labels: documentation

#2929 - Add a config option to allow users to choose module columns to end up in the General Stats table

Issue - State: open - Opened by sandratra-rab about 1 month ago - 1 comment
Labels: core: back end

#2928 - nanostat: add metrics to general statistics table

Issue - State: closed - Opened by sandratra-rab about 1 month ago - 1 comment
Labels: module: enhancement

#2927 - Added links to module pages on index page

Pull Request - State: closed - Opened by justinegeffen about 1 month ago - 1 comment
Labels: documentation

#2926 - Fix typing

Pull Request - State: closed - Opened by vladsavelyev about 1 month ago

#2924 - Cutadapt module broke

Issue - State: closed - Opened by srisarya about 1 month ago - 1 comment
Labels: bug: module

#2923 - Missing an entire block when number of newlines is 0

Issue - State: closed - Opened by achakkas about 1 month ago - 1 comment
Labels: bug: core

#2922 - Fix `cond_formatting_rules` type hint

Pull Request - State: closed - Opened by vladsavelyev about 1 month ago
Labels: bug: core

#2921 - Custom content fixes

Pull Request - State: closed - Opened by vladsavelyev about 1 month ago
Labels: bug: core, custom-content

#2920 - Sample grouping fixes

Pull Request - State: closed - Opened by vladsavelyev about 1 month ago
Labels: core: back end

#2919 - Vertical barplot in fastq-screen output

Issue - State: open - Opened by aitgon about 1 month ago

#2918 - Better portability for flat plots on different systems

Issue - State: closed - Opened by mahesh-panchal about 1 month ago - 5 comments

#2916 - custom_content MultiQC module broke

Issue - State: closed - Opened by JohannesKersting about 1 month ago - 8 comments
Labels: bug: core, custom-content

#2915 - AI tooltips

Pull Request - State: open - Opened by vladsavelyev about 2 months ago

#2914 - Show table in notebooks: respect `col1_header`

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago

#2913 - Fix `config.prepend_dirs` or `-d -dd 1`

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: bug: core

#2912 - Docs: fix the Jupyter example link

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: documentation

#2911 - Fix table CSV export where title contains a comma

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: core: front end

#2909 - Bad 'general_stats_table' export in CSV format

Issue - State: closed - Opened by Feat-FeAR about 2 months ago
Labels: core: front end

#2908 - Automate PR to docs.seqera.io with release notes

Issue - State: open - Opened by ewels about 2 months ago
Labels: core: infrastructure

#2907 - picard module breaks on log file

Issue - State: closed - Opened by alexabbas about 2 months ago - 3 comments
Labels: waiting: example data, waiting: response

#2906 - Kraken Content No Longer Correctly Displayed

Issue - State: closed - Opened by whottel about 2 months ago

#2905 - Samtools: Add insert size to general stats table

Pull Request - State: closed - Opened by pontushojer about 2 months ago
Labels: module: enhancement

#2904 - Docs: embed generated-index into index.mdx

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: documentation

#2903 - Docs: build modules index page with a table

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago - 2 comments
Labels: documentation

#2902 - `cond_formatting_rules` fails in strict mode with numbers

Issue - State: closed - Opened by schorlton-bugseq about 2 months ago - 1 comment
Labels: bug: core

#2901 - Fix generalstats headers key name in documentation

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: documentation, custom-content

#2900 - Regression: General Stats Custom Content Configuration No Longer Works in 1.25

Issue - State: closed - Opened by schorlton-bugseq about 2 months ago - 2 comments
Labels: documentation, custom-content

#2899 - Small config validation improvements

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: core: back end

#2898 - Docs: overview page heading

Pull Request - State: closed - Opened by ewels about 2 months ago
Labels: documentation

#2897 - samtools stats: add insert size to general statistics

Issue - State: closed - Opened by almahans about 2 months ago - 1 comment
Labels: module: enhancement

#2896 - Update docs on admonitions

Pull Request - State: closed - Opened by ewels about 2 months ago
Labels: documentation

#2895 - Kraken: fix minimizers heatmap

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: bug: module

#2894 - Remove the separate Bracken module as it just uses Kraken internally

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: module: change

#2893 - Bump 1.25.1

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago

#2892 - Support Python 3.8

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: core: infrastructure

#2891 - Strip out docs machinery, update a lot of links

Pull Request - State: closed - Opened by ewels about 2 months ago
Labels: documentation

#2890 - Docs migrate v2

Pull Request - State: closed - Opened by ewels about 2 months ago - 1 comment
Labels: documentation

#2889 - Suppress "SyntaxWarning: invalid escape sequence" warning from `colormath`

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: core: infrastructure

#2888 - Disable plot export in incompatible architecture containers (when running through rosetta)

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: core: back end

#2887 - Remove weird import and fix image build

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago

#2886 - Build docker image on any commit

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: core: infrastructure

#2885 - picard: Add table with all metrics to VariantCallingMetrics section

Pull Request - State: closed - Opened by spaul91 about 2 months ago - 5 comments
Labels: module: enhancement

#2884 - Docker image failes to build

Issue - State: closed - Opened by jchorl about 2 months ago - 3 comments
Labels: core: infrastructure

#2883 - table_sample_merge to multiqc_config.yml cause the missing of modules

Issue - State: closed - Opened by LilyAnderssonLee about 2 months ago - 1 comment
Labels: waiting: example data

#2882 - bbmap: support qhist with only R1 and extra header

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: bug: module

#2881 - Kraken: re-add the Unclassified tab to the Top taxa barplot

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: module: enhancement

#2880 - Picard HsMetrics: fix collecting data sources

Pull Request - State: closed - Opened by vladsavelyev about 2 months ago
Labels: bug: module

#2879 - Fix export general stats to `multiqc_data.json`: flatten row groups for back-compatibility

Pull Request - State: closed - Opened by vladsavelyev 2 months ago
Labels: core: back end

#2878 - [not an issue] MultiQC v1.25 does not work with FastP output

Issue - State: closed - Opened by mdtorohernando 2 months ago - 4 comments

#2877 - Picard HsMetrics module not storing corrrect file paths into source list

Issue - State: closed - Opened by ccwang002 2 months ago - 1 comment
Labels: bug: module

#2876 - Kraken plot not displayed in MultiQC after version 1.23

Issue - State: closed - Opened by nschcolnicov 2 months ago - 6 comments
Labels: waiting: example data

#2875 - Custom tables: ignore unrecognized fields instead of failing

Pull Request - State: closed - Opened by vladsavelyev 2 months ago - 1 comment
Labels: bug: core, custom-content

#2874 - Update overview-svg-inline

Pull Request - State: closed - Opened by ewels 2 months ago