Saravanan666/pypi-org huggingface dataset:
Package: genice-cage
genice-cageAGenIceplugin to detect cage-like topologies.version 0.4.6Requirementscountrings>=0.1.7genice>=0.25attrdictnetworkxnumpyyaplotlib>=0.1.2jinja2Installation from PyPI% pip install genice_cageManual InstallationSystem-wide installation% make installPrivate installationCopy the files in genice_cage/formats/ into your local formats/ folder.UsageUsage: 
    % genice CS1 -r 2 2 2 -f cage[12,14-16:ring=-6] 
    % genice CRN1 -f cage[3-10:json] 
    % genice CRN1 -f cage[3-10:yaplot] 
    % genice CS2 -w tip4p -f cage[gromacs:-16:ring=5,6]
    % analice traj.gro -O OW -H HW[12] -w tip4p -f cage[quad]
    % analice traj.gro -O OW -H HW[12] -w tip4p -f cage[quad:json]

It may not work with a small structure. (In the example above, the unit cell of CS1 is extended to 2x2x2 so as to avoid detecting cell-spanning wierd cages.)

Options:
    Cage sizes to be listed, separated by commas and ranged with hyphens. (e.g. -4,6,8-10,16-) (default is 3-16)
    ring=3,5-6 Specify the ring sizes that cages are built of (default is 3-8, maximum is 8).
    json       Output values in [JSON](https://www.json.org/) format.
    yaplot     Visualize cages with [Yaplot](https://github.com/vitroid/Yaplot/). Cages are drawn in different layers according to the number of faces, and faces are colored according to the number of vertices.
    gromacs    Output individual cages in Gromacs format. (EXPERIMENTAL)
    quad       Quadcage order parameter to identify the Frank-Kasper-type crystal structures.[JMM2011] Cages sizes and maximum ring size are set appropriately automatically.
    python     Output cage types in python format convenient for GenIce lattice modules. 
* [JMM2011] Jacobson, L. C., Matsumoto, M. & Molinero, V. Order parameters for the multistep crystallization of clathrate hydrates. J. Chem. Phys. 135, 074501 (2011).[doi:10.1063/1.3613667](https://doi.org/10.1063/1.3613667)Test in place% make testAlgorithmsM. Matsumoto, A. Baba, and I. Ohmine, Topological building blocks of hydrogen bond network in water, J. Chem. Phys. 127, 134504 (2007);doi:10.1063/1.2772627
Package: genice-cif
genice-cifAGenIceplugin to import CIF file.(version 0.2.1)Requirements% make preparewill install required packages via pip.cif2ice>=0.2.2GenIce>=0.25InstallationSystem-wide installationInstall via pip.% pip install genice_cifPrivate installationNot supported.UsageTo convert a local cif file to Gromacs format,% genice cif[RHO.cif] > RHO.groSome zeolites share the network topology with low-density ices. If you want to retrieve a zeolite ITT structure fromIZA structure databaseto prepare a low-density ice, try the following command:% genice zeolite[ITT] > ITT.groTest in place% make test
Package: genice_diffr
# genice-diffrA [GenIce](https://github.com/vitroid/GenIce) plugin for visualizing the structure factor in 3D.## Requirements[GenIce](https://github.com/vitroid/GenIce) >=0.23.[yaplotlib](https://github.com/vitroid/yaplotlib) >=0.1.[contour3d](https://github.com/vitroid/contour3d) >=0.1.## Installation### System-wide installation% make install### Private installationCopy the files in genice_diffr/formats/ into your local formats folder of GenIce.## Usage% genice 1c -r 3 3 3 -f _Diffr[25.0,50.0] > 1c.diffr.yap
% yaplot 1c.diffr.yap[25.0,50.0] are the threshold values for rendering the contour.  Default value is 5.0.
Currently, the output format is in [Yaplot](https://github.com/vitroid/Yaplot).## Test in place% make test
% yaplot iceR.diffr.yap
Package: genice-rdf
genice-rdfA GenIce format plugin to calculate radial distribution functions.version 0.3.3RequirementsPairList>=0.2.3GenIce<2.0Installation from PyPI% pip install genice_rdfManual InstallationSystem-wide installation% make installPrivate installationCopy the files in formats/ into your local formats/ folder.UsageUsage: 
    % genice 1c -r 3 3 3 -w tip4p -f _RDF > 1c.rdf
    % genice 1c -r 3 3 3 -w tip4p -f _RDF[OW:H=HW1=HW2] > 1c.rdf
    % analice data.gro  -O OW -H HW[12] -w tip3p -f _RDF[OW:HW1=HW2] > data.rdf

Options:
    Atom name
    Atom name and aliases chained with "=".
    json      Output in JSON format.
    range=x   Range of interest (0.9 nm)
    binw=x    Bin width (0.003 nm)

Options must be separated with colons.

You can specify the list of atom types to be calculated.

For example, in the following case, TIP4P water has four different atom
types (OW, HW1, HW2, and MW), so all the possible 10 combinations of 
atom types will be examined.

    % genice 1c -r 3 3 3 -w tip4p -f _RDF > 1c.rdf

If you just want the RDF of OW and H, and HW1 and HW2 should be 
abbreviated by H, specify the option string like following.

    % genice 1c -r 3 3 3 -w tip4p -f _RDF[OW:H=HW1=HW2] > 1c.rdfTest in place% make test
Package: genice-svg
genice 4R -f png[shadow:rotatex=2:rotatey=88] > 4R.pnggenice-svgAGenIceplugin to illustrate the structure in SVG (and PNG) format.version 0.6.1Requirementssvgwritegenice<2.0pillowattrdictcountrings>=0.1.7jinja2Installation from PyPI% pip install genice_svgManual InstallationSystem-wide installation% make installPrivate installationCopy the files in genice_svg/formats/ into your local formats/ folder.UsageUsage:
    % genice CS2 -r 3 3 3 -f svg[rotatex=30:shadow] > CS2.svg

Options:
    rotatex=30
    rotatey=30
    rotatez=30
    polygon        Draw polygons instead of a ball and stick model.
    shadow         Draw shadows behind balls.
    bg=#f00        Specify the background color.
    H=0            Size of the hydrogen atom
    O=0.06
    HB=0.4
    OH=0.5
    width=0        (Pixel)
    height=0       (Pixel)Png is a quick alternative for svg. Use png if making svg is too slow.Usage:
    % genice CS2 -r 3 3 3 -f png[shadow:bg=#f00] > CS2.png

Options:
    rotatex=30
    rotatey=30
    rotatez=30
    shadow         Draw shadows behind balls.
    bg=#f00        Specify the background color.
    H=0            Size of the hydrogen atom
    O=0.06
    HB=0.4
    OH=0.5
    width=0        (Pixel)
    height=0       (Pixel)Test in place% make test
Package: genice-twist
genice-twistDraw the structure with twist order parameter.version 0.1.2Requirementsgenice<2.0genice-svg>=0.4twist-op>=0.2sklearnInstallation from PyPI% pip install genice_twistManual InstallationSystem-wide installation% make installPrivate InstallationCopy the files in formats/ into your local formats/ folder.Usageusage:
    genice II -f twist[options:separated:by:colons] > file

Output the twist values for all the hydrogen-bonded pairs.

options:
    png      Draw the hydrogen bonds with a rainbow palette according to the twist value in PNG format.
    png:CM   Draw the hydrogen bonds with color-mixing scheme in PNG format.
    png:DB   Draw the hydrogen bonds with decision-boundary coloring scheme in PNG format.
    png:SB   Draw the hydrogen bonds with simple boundary coloring scheme in PNG format.
    svg      Draw the hydrogen bonds with a rainbow palette according to the twist value in SVG format.
    svg:CM   Draw the hydrogen bonds with color-mixing scheme in SVG format.
    svg:DB   Draw the hydrogen bonds with decision-boundary coloring scheme in SVG format.
    svg:SB   Draw the hydrogen bonds with simple boundary coloring scheme in SVG format.
    yaplot   Draw the hydrogen bonds with a rainbow palette according to the twist value in YaPlot format.
    shadow   Draw shadows to the atoms (PNG and SVG)
    Ih=filename.twhist   Specify the (two-dimensional) histogram of twist parameter in pure ice Ih.
    Ic=filename.twhist   Specify the (two-dimensional) histogram of twist parameter in pure ice Ic.
    LDL=filename.twhist  Specify the (two-dimensional) histogram of twist parameter in pure LDL.
    HDL=filename.twhist  Specify the (two-dimensional) histogram of twist parameter in pure HDL.
    rotatex=30   Rotate the picture (SVG and PNG)
    rotatey=30   Rotate the picture (SVG and PNG)
    rotatez=30   Rotate the picture (SVG and PNG)Auxiliary FilesIhST2.twhistIcST2.twhistLDLST2.twhistHDLST2.twhistThey are two-dimensional (i.e. real and imaginary) histograms of twist order parameter of ST2 water at 235 K, 0.98 g cm$^{-3}$. You have to prepare the appropriate histogram if you want to apply CM (color-mixing) or DB (decision-boundary) coloring scheme to other water models or in other conditions.Test in place% make testReferenceMatsumoto, M., Yagasaki, T. & Tanaka, H. A Bayesian approach for identification of ice Ih, ice Ic, high density, and low density liquid water with a torsional order parameter. J. Chem. Phys. 150, 214504 (2019).
Package: genice-vpython
genice-vpythonAGenIceplugin to visualize the structure withVPython.version 0.4.3Requirementsvpythongenice<2.0countrings>=0.1.7Installation from PyPI% pip install genice_vpythonManual InstallationSystem-wide installation% make installPrivate installationCopy the files in genice_svg/formats/ into your local formats/ folder.UsageUsage:
    genice III -f vpython

    opens a window in the web browser to show the image.

Options:

    No options available.Test in place% make test
Package: genie
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie bundled with
the modular architecture of pyATS framework accelerates and simplifies test
automation leveraging all the perks of the Python programming language in an
object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Component BreakdownConfSub-component of Genie that Configures topology through Python object
attributes, featuring a common object structure. These object’s structures
means that they are compatible with all operating systems and Management
Interfaces (such as CLI/Yang/REST, etc.)OpsSub-component of Genie that Represents the operational state of the
feature through object attributes. These object’s structures means that
they are compatible with all operating systems and Management Interfaces
(such as CLI/Yang/REST, etc).HarnessSub-component of Genie which bring the concept of event driven
testing into the pyATS framework. With event driven testing, script and
testcases are derived dynamically based on selected triggers and
verification from the Genie SDK pool.Utilsas its name suggests - various utilities used throughout the infrastructure.RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems.
Windows platforms are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie#toupgradethispackagemanually$pipinstall--upgradegenie#toinstallalpha/betaversions,add--pre$pipinstall--pregenieFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.ExampleExamples showcasing various features & idioms of coding can be found here:https://github.com/CiscoTestAutomation/examples
Package: genie-chart.py
genie-chart.pygenie-chart.py is a Python API that retrieves the TOP 100 chart information from theGenie.Installationpip install genie-chart.pyQuickstartThe main usage of genie-chart.py is similar tobillboard.py.>>> from genie import *
>>> chart = ChartData(chartPeriod=GenieChartPeriod.Monthly)
>>> print(chart[0].json())
{
    "artist": "NewJeans",
    "image": "https://image.genie.co.kr/Y/IMAGE/IMG_ALBUM/083/325/577/83325577_1672649874616_1_140x140.JPG/dims/resize/Q_80,0",
    "lastPos": 1,
    "peakPos": 1,
    "rank": 1,
    "title": "Ditto"
}
>>> print(chart.date)
2023-04-09 00:00:00ChartData Argumentsdate– The chart datechartPeriodGenieChartPeriod.Realtime – 실시간GenieChartPeriod.Daily – 일간GenieChartPeriod.Weekly – 주간GenieChartPeriod.Monthly – 월간GenieChartPeriod.Alltime – 누적fetch– A boolean value that indicates whether to retrieve the chart data immediately. If set toFalse, you can fetch the data later using thefetchEntries()method.Chart entry attributesChartEntrycan be accessed using theChartData[index]syntax. AChartEntryinstance has the following attributes:title– The title of the trackartist– The name of the artistimage– The URL of the cover image for the trackpeakPos- The track's peak position on the chart.lastPos- The track's last position on the previous period.rank– The track's current rank position on the chart.DependenciesrequestsLicenseThis project is licensed under the MIT License.
Package: genie.conf
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie bundled with
the modular architecture of pyATS framework accelerates and simplifies test
automation leveraging all the perks of the Python programming language in an
object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Conf PackageThis is a sub-component of Genie that Configures topology through Python object
attributes, featuring a common object structure. These object’s structures
means that they are compatible with all operating systems and Management
Interfaces (such as CLI/Yang/REST, etc.)RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie#toupgradethispackagemanually$pipinstall--upgradegenie.conf#toinstallalpha/betaversions,add--pre$pipinstall--pregenie.confFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.
Package: genie.examples
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie bundled with
the modular architecture of pyATS framework accelerates and simplifies test
automation leveraging all the perks of the Python programming language in an
object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Examples PackageContains various examples of Genie that installs into your local virtual
environment atsys.prefix/examples/genie/$VIRTUAL_ENV/examples/genie.RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie#toupgradethispackagemanually$pipinstall--upgradegenie.examples#toinstallalpha/betaversions,add--pre$pipisntall--pregenie.examplesFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.
Package: genie.harness
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie bundled with
the modular architecture of pyATS framework accelerates and simplifies test
automation leveraging all the perks of the Python programming language in an
object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Harness PackageThis is a sub-component of Genie which bring the concept of event driven
testing into the pyATS framework. With event driven testing, script and
testcases are derived dynamically based on selected triggers and verification
from the Genie SDK pool.RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie#toupgradethispackagemanually$pipinstall--upgradegenie.harness#toinstallalpha/betaversions,add--pre$pipinstall--pregenie.harnessFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.
Package: genie.libs.clean
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie
bundled with the modular architecture of pyATS framework accelerates and
simplifies test automation leveraging all the perks of the Python programming
language in an object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Clean PackageThis is a sub-component of Genie that provides clean implementations to
recover and bring up devices to the desired testable state.RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie.clean#toupgradethispackagemanually$pipinstall--upgradegenie.clean#toinstallalpha/betaversions,add--pre$pipinstall--pregenie.cleanFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.
Package: genie.libs.conf
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie
bundled with the modular architecture of pyATS framework accelerates and
simplifies test automation leveraging all the perks of the Python programming
language in an object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Conf Libs PackageThis is the library sub-component of Genie forgenie.conf. It Configures
topology through Python object attributes, featuring a common object structure.
These object’s structures means that they are compatible with all operating
systems and Management Interfaces (such as CLI/Yang/REST, etc.). These
libraries are community driven.RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie#toupgradethispackagemanually$pipinstall--upgradegenie.libs.conf#toinstallalpha/betaversions,add--pre$pipinstall--pregenie.libs.confFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.
Package: genie.libs.filetransferutils
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie bundled with
the modular architecture of pyATS framework accelerates and simplifies test
automation leveraging all the perks of the Python programming language in an
object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/FileTransferUtils PackageThis is a sub-component of Genie that contains utility functions for a file
transfer to/from server.RequirementsGenie currently supports Python 3.4+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie#toupgradethispackagemanually$pipinstall--upgradegenie.libs.filetransferutils#toinstallalpha/betaversions,add--pre$pipinstall--pregenie.libs.filetransferutilsFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.
Package: genie.libs.health
Genie is both a library framework and a test harness that facilitates rapid
development, encourage re-usable and simplify writing test automation. Genie
bundled with the modular architecture of pyATS framework accelerates and
simplifies test automation leveraging all the perks of the Python programming
language in an object-orienting fashion.pyATS is an end-to-end testing ecosystem, specializing in data-driven and
reusable testing, and engineered to be suitable for Agile, rapid development
iterations. Extensible by design, pyATS enables developers start with small,
simple and linear test cases, and scale towards large, complex and asynchronous
test suites.Genie was initially developed internally in Cisco, and is now available to the
general public starting early 2018 throughCisco DevNet. Visit the Genie
home page athttps://developer.cisco.com/site/pyats/Health PackageThis is a sub-component of Genie that provides health implementations to
monitor device health status and traceback, collect core files.RequirementsGenie currently supports Python 3.5+ on Linux & Mac systems. Windows platforms
are not yet supported.Quick Start#installgenieasawhole$pipinstallgenie.libs.health#toupgradethispackagemanually$pipinstall--upgradegenie.libs.health#toinstallalpha/betaversions,add--pre$pipinstall--pregenie.libs.healthFor more information on setting up your Python development environment,
such as creating virtual environment and installingpipon your system,
please refer toVirtual Environment and Packagesin Python tutorials.