%global _empty_manifest_terminate_build 0 Name: python-minFQ Version: 1.4.7 Release: 1 Summary: Command line interface for uploading fastq files and monitoring minKNOW for minotour. License: MIT URL: https://github.com/LooseLab/minotourcli Source0: https://mirrors.aliyun.com/pypi/web/packages/f1/d3/a2087265819052338ccba9457caae60a7c12fe1589443c5d301dafaa71e8/minFQ-1.4.7.tar.gz BuildArch: noarch Requires: python3-tqdm Requires: python3-dateutil Requires: python3-requests Requires: python3-numpy Requires: python3-watchdog Requires: python3-configargparse Requires: python3-grpcio Requires: python3-google Requires: python3-protobuf Requires: python3-pandas Requires: python3-ont-fast5-api Requires: python3-minknow-api Requires: python3-validators Requires: python3-grpcio-tools Requires: python3-toml %description A command line client for uploading sequencing metrics from Oxford Nanopore Technologies MinKNOW to a LooseLab minoTour server instance. MinFQ only supports minknow core 4.X.X as it uses ONT's minknow-api, which is only compatible with said version of MinKNOW. However, base called data can be uploaded from any version of MinKNOW/Guppy. **To install -** pip install minFQ **Example Commands** In the example commands below example parameters are: - your_user_key: is the long string found in the profile section of your minoTour account. - url_to_your_minotour_server: Probably 127.0.0.1, could be a remote address like minotour.nottingham.ac.uk - port_for_your_server: Probably 8000 To monitor both live and fastq data. minFQ -k [your_user_key] -w /path/to/your/fastq/files -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] To monitor just live data from minKNOW. minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] -nf To monitor live data and enable limited remote control of minKNOW. minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] -nf -rc To monitor just fastq data. minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm To monitor fastq statistics only. (Note you will not be able to run subsequent analysis on the server which requires sequence data). minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm -s To start an analysis remotely whilst uploading data. Note reference Id may not be required. minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm -j [job_id] -r [reference_id] **minFQ Gui** We are in the process of rebuilding a minFQ gui. Watch this space. %package -n python3-minFQ Summary: Command line interface for uploading fastq files and monitoring minKNOW for minotour. Provides: python-minFQ BuildRequires: python3-devel BuildRequires: python3-setuptools BuildRequires: python3-pip %description -n python3-minFQ A command line client for uploading sequencing metrics from Oxford Nanopore Technologies MinKNOW to a LooseLab minoTour server instance. MinFQ only supports minknow core 4.X.X as it uses ONT's minknow-api, which is only compatible with said version of MinKNOW. However, base called data can be uploaded from any version of MinKNOW/Guppy. **To install -** pip install minFQ **Example Commands** In the example commands below example parameters are: - your_user_key: is the long string found in the profile section of your minoTour account. - url_to_your_minotour_server: Probably 127.0.0.1, could be a remote address like minotour.nottingham.ac.uk - port_for_your_server: Probably 8000 To monitor both live and fastq data. minFQ -k [your_user_key] -w /path/to/your/fastq/files -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] To monitor just live data from minKNOW. minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] -nf To monitor live data and enable limited remote control of minKNOW. minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] -nf -rc To monitor just fastq data. minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm To monitor fastq statistics only. (Note you will not be able to run subsequent analysis on the server which requires sequence data). minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm -s To start an analysis remotely whilst uploading data. Note reference Id may not be required. minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm -j [job_id] -r [reference_id] **minFQ Gui** We are in the process of rebuilding a minFQ gui. Watch this space. %package help Summary: Development documents and examples for minFQ Provides: python3-minFQ-doc %description help A command line client for uploading sequencing metrics from Oxford Nanopore Technologies MinKNOW to a LooseLab minoTour server instance. MinFQ only supports minknow core 4.X.X as it uses ONT's minknow-api, which is only compatible with said version of MinKNOW. However, base called data can be uploaded from any version of MinKNOW/Guppy. **To install -** pip install minFQ **Example Commands** In the example commands below example parameters are: - your_user_key: is the long string found in the profile section of your minoTour account. - url_to_your_minotour_server: Probably 127.0.0.1, could be a remote address like minotour.nottingham.ac.uk - port_for_your_server: Probably 8000 To monitor both live and fastq data. minFQ -k [your_user_key] -w /path/to/your/fastq/files -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] To monitor just live data from minKNOW. minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] -nf To monitor live data and enable limited remote control of minKNOW. minFQ -k [your_user_key] -ip 127.0.0.1 -hn [url_to_your_minotour_server] -p [port_for_your_server] -nf -rc To monitor just fastq data. minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm To monitor fastq statistics only. (Note you will not be able to run subsequent analysis on the server which requires sequence data). minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm -s To start an analysis remotely whilst uploading data. Note reference Id may not be required. minFQ -k [your_user_key] -w /path/to/your/fastq/files -hn [url_to_your_minotour_server] -p [port_for_your_server] -nm -j [job_id] -r [reference_id] **minFQ Gui** We are in the process of rebuilding a minFQ gui. Watch this space. %prep %autosetup -n minFQ-1.4.7 %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-minFQ -f filelist.lst %dir %{python3_sitelib}/* %files help -f doclist.lst %{_docdir}/* %changelog * Tue Jun 20 2023 Python_Bot - 1.4.7-1 - Package Spec generated