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+%global _empty_manifest_terminate_build 0
+Name:		python-NanoFilt
+Version:	2.8.0
+Release:	1
+Summary:	Filtering and trimming of Oxford Nanopore Sequencing data
+License:	GPLv3
+URL:		https://github.com/wdecoster/nanofilt
+Source0:	https://mirrors.nju.edu.cn/pypi/web/packages/85/fb/6218b8f18dd3b39569cdfd2803f837730f392cc31df58d5ea927cc14c40c/NanoFilt-2.8.0.tar.gz
+BuildArch:	noarch
+
+
+%description
+# Nanofilt
+Filtering and trimming of long read sequencing data.
+
+[![Twitter URL](https://img.shields.io/twitter/url/https/twitter.com/wouter_decoster.svg?style=social&label=Follow%20%40wouter_decoster)](https://twitter.com/wouter_decoster)
+[![conda badge](https://anaconda.org/bioconda/nanofilt/badges/installer/conda.svg)](https://anaconda.org/bioconda/nanofilt)
+[![Build Status](https://travis-ci.org/wdecoster/nanofilt.svg?branch=master)](https://travis-ci.org/wdecoster/nanofilt)
+
+
+
+Filtering on quality and/or read length, and optional trimming after passing filters.  
+Reads from stdin, writes to stdout.  Optionally reads directly from an uncompressed file specified on the command line.
+
+Intended to be used:  
+- directly after fastq extraction  
+- prior to mapping  
+- in a stream between extraction and mapping  
+
+See also [my post about NanoFilt on my blog Gigabase or gigabyte](https://gigabaseorgigabyte.wordpress.com/2017/06/05/trimming-and-filtering-oxford-nanopore-sequencing-reads/).  
+Due to [a discrepancy](https://gigabaseorgigabyte.wordpress.com/2017/07/14/calculated-average-quality-vs-albacore-summary/) between calculated read quality and the quality as summarized by albacore this script takes since v1.1.0 optionally also a `--summary` argument. Using this argument with the sequencing_summary.txt file from albacore will do the filtering using the quality scores from the summary. It's also faster.
+
+### INSTALLATION AND UPGRADING:
+
+`pip install nanofilt`  
+`pip install nanofilt --upgrade`
+
+or
+
+`conda install -c bioconda nanofilt`
+
+NanoFilt is written for Python 3.
+
+### USAGE:
+```
+NanoFilt [-h] [-v] [--logfile LOGFILE] [-l LENGTH]
+                [--maxlength MAXLENGTH] [-q QUALITY] [--minGC MINGC]
+                [--maxGC MAXGC] [--headcrop HEADCROP] [--tailcrop TAILCROP]
+                [-s SUMMARY] [--readtype {1D,2D,1D2}]
+                [input]
+
+Perform quality and/or length and/or GC filtering of (long read) fastq data. Reads on stdin.
+
+General options:
+  -h, --help            show the help and exit
+  -v, --version         Print version and exit.
+  --logfile LOGFILE     Specify the path and filename for the log file.
+  input                 input, uncompressed fastq file (optional)
+
+Options for filtering reads on.:
+  -l, --length LENGTH   Filter on a minimum read length
+  --maxlength MAXLENGTH Filter on a maximum read length
+  -q, --quality QUALITY Filter on a minimum average read quality score
+  --minGC MINGC         Sequences must have GC content >= to this. Float between 0.0 and 1.0. Ignored if
+                        using summary file.
+  --maxGC MAXGC         Sequences must have GC content <= to this. Float between 0.0 and 1.0. Ignored if
+                        using summary file.
+
+Options for trimming reads.:
+  --headcrop HEADCROP   Trim n nucleotides from start of read
+  --tailcrop TAILCROP   Trim n nucleotides from end of read
+
+Input options.:
+  -s, --summary SUMMARY Use albacore or guppy summary file for quality scores
+  --readtype            Which read type to extract information about from summary. Options are 1D, 2D or 1D2
+ ```
+
+### EXAMPLES
+```bash
+gunzip -c reads.fastq.gz | NanoFilt -q 10 -l 500 --headcrop 50 | minimap2 genome.fa - | samtools sort -O BAM -@24 -o alignment.bam -
+gunzip -c reads.fastq.gz | NanoFilt -q 12 --headcrop 75 | gzip > trimmed-reads.fastq.gz
+gunzip -c reads.fastq.gz | NanoFilt -q 10 | gzip > highQuality-reads.fastq.gz
+```
+
+I welcome all suggestions, bug reports, feature requests and contributions. Please leave an [issue](https://github.com/wdecoster/nanofilt/issues) or open a pull request. I will usually respond within a day, or rarely within a few days.
+
+## CITATION
+If you use this tool, please consider citing our [publication](https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/bty149/4934939).
+
+%package -n python3-NanoFilt
+Summary:	Filtering and trimming of Oxford Nanopore Sequencing data
+Provides:	python-NanoFilt
+BuildRequires:	python3-devel
+BuildRequires:	python3-setuptools
+BuildRequires:	python3-pip
+%description -n python3-NanoFilt
+# Nanofilt
+Filtering and trimming of long read sequencing data.
+
+[![Twitter URL](https://img.shields.io/twitter/url/https/twitter.com/wouter_decoster.svg?style=social&label=Follow%20%40wouter_decoster)](https://twitter.com/wouter_decoster)
+[![conda badge](https://anaconda.org/bioconda/nanofilt/badges/installer/conda.svg)](https://anaconda.org/bioconda/nanofilt)
+[![Build Status](https://travis-ci.org/wdecoster/nanofilt.svg?branch=master)](https://travis-ci.org/wdecoster/nanofilt)
+
+
+
+Filtering on quality and/or read length, and optional trimming after passing filters.  
+Reads from stdin, writes to stdout.  Optionally reads directly from an uncompressed file specified on the command line.
+
+Intended to be used:  
+- directly after fastq extraction  
+- prior to mapping  
+- in a stream between extraction and mapping  
+
+See also [my post about NanoFilt on my blog Gigabase or gigabyte](https://gigabaseorgigabyte.wordpress.com/2017/06/05/trimming-and-filtering-oxford-nanopore-sequencing-reads/).  
+Due to [a discrepancy](https://gigabaseorgigabyte.wordpress.com/2017/07/14/calculated-average-quality-vs-albacore-summary/) between calculated read quality and the quality as summarized by albacore this script takes since v1.1.0 optionally also a `--summary` argument. Using this argument with the sequencing_summary.txt file from albacore will do the filtering using the quality scores from the summary. It's also faster.
+
+### INSTALLATION AND UPGRADING:
+
+`pip install nanofilt`  
+`pip install nanofilt --upgrade`
+
+or
+
+`conda install -c bioconda nanofilt`
+
+NanoFilt is written for Python 3.
+
+### USAGE:
+```
+NanoFilt [-h] [-v] [--logfile LOGFILE] [-l LENGTH]
+                [--maxlength MAXLENGTH] [-q QUALITY] [--minGC MINGC]
+                [--maxGC MAXGC] [--headcrop HEADCROP] [--tailcrop TAILCROP]
+                [-s SUMMARY] [--readtype {1D,2D,1D2}]
+                [input]
+
+Perform quality and/or length and/or GC filtering of (long read) fastq data. Reads on stdin.
+
+General options:
+  -h, --help            show the help and exit
+  -v, --version         Print version and exit.
+  --logfile LOGFILE     Specify the path and filename for the log file.
+  input                 input, uncompressed fastq file (optional)
+
+Options for filtering reads on.:
+  -l, --length LENGTH   Filter on a minimum read length
+  --maxlength MAXLENGTH Filter on a maximum read length
+  -q, --quality QUALITY Filter on a minimum average read quality score
+  --minGC MINGC         Sequences must have GC content >= to this. Float between 0.0 and 1.0. Ignored if
+                        using summary file.
+  --maxGC MAXGC         Sequences must have GC content <= to this. Float between 0.0 and 1.0. Ignored if
+                        using summary file.
+
+Options for trimming reads.:
+  --headcrop HEADCROP   Trim n nucleotides from start of read
+  --tailcrop TAILCROP   Trim n nucleotides from end of read
+
+Input options.:
+  -s, --summary SUMMARY Use albacore or guppy summary file for quality scores
+  --readtype            Which read type to extract information about from summary. Options are 1D, 2D or 1D2
+ ```
+
+### EXAMPLES
+```bash
+gunzip -c reads.fastq.gz | NanoFilt -q 10 -l 500 --headcrop 50 | minimap2 genome.fa - | samtools sort -O BAM -@24 -o alignment.bam -
+gunzip -c reads.fastq.gz | NanoFilt -q 12 --headcrop 75 | gzip > trimmed-reads.fastq.gz
+gunzip -c reads.fastq.gz | NanoFilt -q 10 | gzip > highQuality-reads.fastq.gz
+```
+
+I welcome all suggestions, bug reports, feature requests and contributions. Please leave an [issue](https://github.com/wdecoster/nanofilt/issues) or open a pull request. I will usually respond within a day, or rarely within a few days.
+
+## CITATION
+If you use this tool, please consider citing our [publication](https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/bty149/4934939).
+
+%package help
+Summary:	Development documents and examples for NanoFilt
+Provides:	python3-NanoFilt-doc
+%description help
+# Nanofilt
+Filtering and trimming of long read sequencing data.
+
+[![Twitter URL](https://img.shields.io/twitter/url/https/twitter.com/wouter_decoster.svg?style=social&label=Follow%20%40wouter_decoster)](https://twitter.com/wouter_decoster)
+[![conda badge](https://anaconda.org/bioconda/nanofilt/badges/installer/conda.svg)](https://anaconda.org/bioconda/nanofilt)
+[![Build Status](https://travis-ci.org/wdecoster/nanofilt.svg?branch=master)](https://travis-ci.org/wdecoster/nanofilt)
+
+
+
+Filtering on quality and/or read length, and optional trimming after passing filters.  
+Reads from stdin, writes to stdout.  Optionally reads directly from an uncompressed file specified on the command line.
+
+Intended to be used:  
+- directly after fastq extraction  
+- prior to mapping  
+- in a stream between extraction and mapping  
+
+See also [my post about NanoFilt on my blog Gigabase or gigabyte](https://gigabaseorgigabyte.wordpress.com/2017/06/05/trimming-and-filtering-oxford-nanopore-sequencing-reads/).  
+Due to [a discrepancy](https://gigabaseorgigabyte.wordpress.com/2017/07/14/calculated-average-quality-vs-albacore-summary/) between calculated read quality and the quality as summarized by albacore this script takes since v1.1.0 optionally also a `--summary` argument. Using this argument with the sequencing_summary.txt file from albacore will do the filtering using the quality scores from the summary. It's also faster.
+
+### INSTALLATION AND UPGRADING:
+
+`pip install nanofilt`  
+`pip install nanofilt --upgrade`
+
+or
+
+`conda install -c bioconda nanofilt`
+
+NanoFilt is written for Python 3.
+
+### USAGE:
+```
+NanoFilt [-h] [-v] [--logfile LOGFILE] [-l LENGTH]
+                [--maxlength MAXLENGTH] [-q QUALITY] [--minGC MINGC]
+                [--maxGC MAXGC] [--headcrop HEADCROP] [--tailcrop TAILCROP]
+                [-s SUMMARY] [--readtype {1D,2D,1D2}]
+                [input]
+
+Perform quality and/or length and/or GC filtering of (long read) fastq data. Reads on stdin.
+
+General options:
+  -h, --help            show the help and exit
+  -v, --version         Print version and exit.
+  --logfile LOGFILE     Specify the path and filename for the log file.
+  input                 input, uncompressed fastq file (optional)
+
+Options for filtering reads on.:
+  -l, --length LENGTH   Filter on a minimum read length
+  --maxlength MAXLENGTH Filter on a maximum read length
+  -q, --quality QUALITY Filter on a minimum average read quality score
+  --minGC MINGC         Sequences must have GC content >= to this. Float between 0.0 and 1.0. Ignored if
+                        using summary file.
+  --maxGC MAXGC         Sequences must have GC content <= to this. Float between 0.0 and 1.0. Ignored if
+                        using summary file.
+
+Options for trimming reads.:
+  --headcrop HEADCROP   Trim n nucleotides from start of read
+  --tailcrop TAILCROP   Trim n nucleotides from end of read
+
+Input options.:
+  -s, --summary SUMMARY Use albacore or guppy summary file for quality scores
+  --readtype            Which read type to extract information about from summary. Options are 1D, 2D or 1D2
+ ```
+
+### EXAMPLES
+```bash
+gunzip -c reads.fastq.gz | NanoFilt -q 10 -l 500 --headcrop 50 | minimap2 genome.fa - | samtools sort -O BAM -@24 -o alignment.bam -
+gunzip -c reads.fastq.gz | NanoFilt -q 12 --headcrop 75 | gzip > trimmed-reads.fastq.gz
+gunzip -c reads.fastq.gz | NanoFilt -q 10 | gzip > highQuality-reads.fastq.gz
+```
+
+I welcome all suggestions, bug reports, feature requests and contributions. Please leave an [issue](https://github.com/wdecoster/nanofilt/issues) or open a pull request. I will usually respond within a day, or rarely within a few days.
+
+## CITATION
+If you use this tool, please consider citing our [publication](https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/bty149/4934939).
+
+%prep
+%autosetup -n NanoFilt-2.8.0
+
+%build
+%py3_build
+
+%install
+%py3_install
+install -d -m755 %{buildroot}/%{_pkgdocdir}
+if [ -d doc ]; then cp -arf doc %{buildroot}/%{_pkgdocdir}; fi
+if [ -d docs ]; then cp -arf docs %{buildroot}/%{_pkgdocdir}; fi
+if [ -d example ]; then cp -arf example %{buildroot}/%{_pkgdocdir}; fi
+if [ -d examples ]; then cp -arf examples %{buildroot}/%{_pkgdocdir}; fi
+pushd %{buildroot}
+if [ -d usr/lib ]; then
+	find usr/lib -type f -printf "/%h/%f\n" >> filelist.lst
+fi
+if [ -d usr/lib64 ]; then
+	find usr/lib64 -type f -printf "/%h/%f\n" >> filelist.lst
+fi
+if [ -d usr/bin ]; then
+	find usr/bin -type f -printf "/%h/%f\n" >> filelist.lst
+fi
+if [ -d usr/sbin ]; then
+	find usr/sbin -type f -printf "/%h/%f\n" >> filelist.lst
+fi
+touch doclist.lst
+if [ -d usr/share/man ]; then
+	find usr/share/man -type f -printf "/%h/%f.gz\n" >> doclist.lst
+fi
+popd
+mv %{buildroot}/filelist.lst .
+mv %{buildroot}/doclist.lst .
+
+%files -n python3-NanoFilt -f filelist.lst
+%dir %{python3_sitelib}/*
+
+%files help -f doclist.lst
+%{_docdir}/*
+
+%changelog
+* Wed May 31 2023 Python_Bot <Python_Bot@openeuler.org> - 2.8.0-1
+- Package Spec generated