Package: con-duct Version: 0.8.0-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 79 Depends: neurodebian-popularity-contest, procps, python3:any Recommends: python3-matplotlib Homepage: https://github.com/con/duct/ Priority: optional Section: python Filename: pool/main/c/con-duct/con-duct_0.8.0-1~nd24.04+1_all.deb Size: 18776 SHA256: d64309cc92c354d32130c5d03a955693ee519cf2c2677201deafa27416b76e77 SHA1: 69c6179eb975bec81f6e4a29e420aba9b5508185 MD5sum: b2ae4c470daef0652333ca2dbb5b95b3 Description: lightweight wrapper to collect execution data for a command con-duct provides a duct command which is a lightweight wrapper that collects execution data for an arbitrary command. Execution data includes execution time, system information, and resource usage statistics of the command and all its child processes. It is intended to simplify the problem of recording the resources necessary to execute a command, particularly in an HPC environment. . Resource usage is determined by polling (at a sample-interval). During execution, duct produces a JSON lines file with one data point recorded for each report (at a report-interval). . This package installs the Python library and command-line tools. Package: datalad Version: 1.1.5-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 230 Depends: neurodebian-popularity-contest, python3-datalad (= 1.1.5-1~nd24.04+1), python3-argcomplete (>= 1.12.3), python3:any Suggests: datalad-container Homepage: https://datalad.org Priority: optional Section: science Filename: pool/main/d/datalad/datalad_1.1.5-1~nd24.04+1_all.deb Size: 191018 SHA256: b903026d5b8d1196a06bffb3f74a811720d69384abf76446366d90425e92fb30 SHA1: 48457cb93141a25ea0739f2212268a75adac5e82 MD5sum: 62f769c26db43cb8ab1629c55270899b Description: data files management and distribution platform DataLad is a data management and distribution platform providing access to a wide range of data resources already available online. Using git-annex as its backend for data logistics it provides following facilities built-in or available through additional extensions . - command line and Python interfaces for manipulation of collections of datasets (install, uninstall, update, publish, save, etc.) and separate files/directories (add, get) Package: datalad-container Version: 1.2.6-2~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 146 Depends: neurodebian-popularity-contest, datalad (>= 0.18~), python3-requests (>= 1.2), python3-chardet (>= 3.0.4), python3-datalad, python3:any Recommends: singularity-container Suggests: docker.io Homepage: http://datalad-container.rtfd.org Priority: optional Section: science Filename: pool/main/d/datalad-container/datalad-container_1.2.6-2~nd24.04+1_all.deb Size: 31218 SHA256: a4f78b5b5ab42149ab68b52d9f5dca7a8928b44c9615e6c3be71c0efa625911b SHA1: 445864c159d7ba3b76cb8faf58ae35d8e4f9cbc8 MD5sum: f0b4019cdaafc0458e977a28cbd7cee1 Description: DataLad extension for working with containerized environments This extension enhances DataLad (http://datalad.org) for working with computational containers. Package: heudiconv Version: 1.3.2-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 13563 Depends: neurodebian-popularity-contest, python3-dcmstack, python3-filelock, python3-nibabel, python3-nipype, python3-pydicom, python3:any, dcm2niix, python3, python3-dicom, python3-inotify, python3-numpy, python3-tinydb Recommends: python3-pytest, python3-datalad, python3-etelemetry Homepage: https://github.com/nipy/heudiconv Priority: optional Section: science Filename: pool/main/h/heudiconv/heudiconv_1.3.2-1~nd24.04+1_all.deb Size: 8609690 SHA256: 01c81da3471d813ff5ea4e5507a3f9322125f85bea8b7f6949cd4193aa0a5231 SHA1: 8d320ba0eb575c7a6792ad13814389aab54ce463 MD5sum: 3d41a2625faf7b0e3f2a3e9b53300092 Description: DICOM converter with support for structure heuristics This is a flexible dicom converter for organizing brain imaging data into structured directory layouts. It allows for flexible directory layouts and naming schemes through customizable heuristics implementations. It only converts the necessary dicoms, not everything in a directory. It tracks the provenance of the conversion from dicom to nifti in w3c prov format. Package: neurodebian Version: 0.43.0~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 96 Depends: python3, wget, neurodebian-archive-keyring, debconf (>= 0.5) | debconf-2.0 Recommends: netselect Suggests: neurodebian-desktop, neurodebian-popularity-contest Homepage: http://neuro.debian.net Priority: optional Section: science Filename: pool/main/n/neurodebian/neurodebian_0.43.0~nd24.04+1_all.deb Size: 32988 SHA256: 74bc6e104bae04002c3c043b46169d271f831d9196674ab9de4dde8c189500d4 SHA1: 7d73c3fbe02c4efca6c8f3b7722ced63cff7cbf4 MD5sum: abc15f4e06279082c42cbe970c3ad9d9 Description: neuroscience-oriented distribution - repository configuration The NeuroDebian project integrates and maintains a variety of software projects within Debian that are useful for neuroscience (such as AFNI, FSL, PsychoPy, etc.) or generic computation (such as HTCondor, pandas, etc.). . This package enables the NeuroDebian repository on top of a standard Debian or Ubuntu system. Package: neurodebian-archive-keyring Source: neurodebian Version: 0.43.0~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 32 Depends: gnupg2 | gnupg, dirmngr Breaks: neurodebian-keyring (<< 0.34~) Replaces: neurodebian-keyring (<< 0.34~) Homepage: http://neuro.debian.net Priority: optional Section: science Filename: pool/main/n/neurodebian/neurodebian-archive-keyring_0.43.0~nd24.04+1_all.deb Size: 15778 SHA256: d9fd1a9361c8185d36877f9d9f8c442cc29a71a52ba33f797a1771e1c386cca0 SHA1: 9cf8b8de3090054533359d4bcc8eb755c1fe7eee MD5sum: 92923aa64dcc9bd300123bc1b453499f Description: neuroscience-oriented distribution - GnuPG archive keys The NeuroDebian project integrates and maintains a variety of software projects within Debian that are useful for neuroscience (such as AFNI, FSL, PsychoPy, etc.) or generic computation (such as HTCondor, pandas, etc.). . The NeuroDebian project digitally signs its Release files. This package contains the archive keys used for that. Package: neurodebian-desktop Source: neurodebian Version: 0.43.0~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 196 Depends: ssh-askpass-gnome | ssh-askpass, desktop-base, adwaita-icon-theme | gnome-icon-theme, neurodebian-popularity-contest Recommends: reportbug-ng Homepage: http://neuro.debian.net Priority: optional Section: science Filename: pool/main/n/neurodebian/neurodebian-desktop_0.43.0~nd24.04+1_all.deb Size: 119974 SHA256: caf575f01e545d39a0c70da6638b42ba9ad9c2e2021dd7fb63776a9385cab842 SHA1: 64b5de37497b187e593383480b768af7ca4e9c8e MD5sum: 9440a1e99b82185802c50f6de7618208 Description: neuroscience-oriented distribution - desktop integration The NeuroDebian project integrates and maintains a variety of software projects within Debian that are useful for neuroscience (such as AFNI, FSL, PsychoPy, etc.) or generic computation (such as HTCondor, pandas, etc.). . This package provides NeuroDebian artwork (icons, background image) and a NeuroDebian menu featuring the most popular neuroscience tools, which will be automatically installed upon initial invocation. Package: neurodebian-dev Source: neurodebian Version: 0.43.0~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 111 Depends: devscripts, neurodebian-archive-keyring Recommends: ubuntu-keyring, python3, zerofree, moreutils, time, debian-archive-keyring, apt-utils, cowbuilder, neurodebian-freeze Suggests: virtualbox-ose, virtualbox-ose-fuse, singularity-container Homepage: http://neuro.debian.net Priority: optional Section: science Filename: pool/main/n/neurodebian/neurodebian-dev_0.43.0~nd24.04+1_all.deb Size: 31804 SHA256: d297747cd9e5e8eb8637c5a9b138c600c2fb543142cc700743b4b3c3822a4052 SHA1: a35c5bf5713aafc7364af71748bb43e6894bd549 MD5sum: d6c0dc2333fff69efe1e7b03476cc8c1 Description: neuroscience-oriented distribution - development tools The NeuroDebian project integrates and maintains a variety of software projects within Debian that are useful for neuroscience (such as AFNI, FSL, PsychoPy, etc.) or generic computation (such as HTCondor, pandas, etc.). . This package provides sources and development tools used by NeuroDebian to provide backports for a range of Debian/Ubuntu releases. Package: neurodebian-freeze Source: neurodebian Version: 0.43.0~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 36 Homepage: http://neuro.debian.net Priority: optional Section: science Filename: pool/main/n/neurodebian/neurodebian-freeze_0.43.0~nd24.04+1_all.deb Size: 12246 SHA256: 3d465f82bafdba2f21e792cc1d5c18937ac8865c4e9dd7883c9c089fe44cecce SHA1: 5a4ebd29f3d2a79ed662bd6e41f64ce7f98e128a MD5sum: 8b583fd176de64cc3f982b11bc11134b Description: nd_freeze tool to freeze APT sources to use snapshots The NeuroDebian project integrates and maintains a variety of software projects within Debian that are useful for neuroscience (such as AFNI, FSL, PsychoPy, etc.) or generic computation (such as HTCondor, pandas, etc.). . This minimalistic package provides nd_freeze script to be used in rich or minimalistic environments (such as Docker or Singularity recipes) to freeze their APT sources. Intended to assist making such images reproducible. Package: neurodebian-popularity-contest Source: neurodebian Version: 0.43.0~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 25 Depends: popularity-contest Homepage: http://neuro.debian.net Priority: optional Section: science Filename: pool/main/n/neurodebian/neurodebian-popularity-contest_0.43.0~nd24.04+1_all.deb Size: 9644 SHA256: cb948006607d1abd60c396c59d78faa10b58a25d504a3b893c93b4a29ec0e24e SHA1: f1e0170249c87ca5fb9d1835409ffaadd7cac5e5 MD5sum: 07d97d3978580c86213d197bc0375e9f Description: neuroscience-oriented distribution - popcon integration The NeuroDebian project integrates and maintains a variety of software projects within Debian that are useful for neuroscience (such as AFNI, FSL, PsychoPy, etc.) or generic computation (such as HTCondor, pandas, etc.). . This package is a complement to the generic popularity-contest package to enable anonymous submission of usage statistics to NeuroDebian in addition to the popcon submissions to the underlying distribution (either Debian or Ubuntu) popcon server. . Participating in popcon is important for the following reasons: * Popular packages receive more attention from developers; bugs are fixed faster and updates are provided quicker. * It ensures that support is not dropped for a previous release of Debian or Ubuntu while there are active users. * User statistics may be useful for upstream research software developers seeking funding for continued development. . This requires that popcon is activated for the underlying distribution (Debian or Ubuntu), which can be achieved by running "dpkg-reconfigure popularity-contest" as root. Package: psychtoolbox-3-common Source: psychtoolbox-3 Version: 3.0.19.14.dfsg1-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 57985 Depends: neurodebian-popularity-contest Recommends: alsa-utils, apriltag, gamemode Suggests: gnuplot Homepage: http://psychtoolbox.org Priority: optional Section: science Filename: pool/main/p/psychtoolbox-3/psychtoolbox-3-common_3.0.19.14.dfsg1-1~nd24.04+1_all.deb Size: 26769004 SHA256: 757653da3af4377de7852bd7cd91308cf6e21e2560bb4281a54892f2dc9b2cdf SHA1: 50ff08b4effcb56dcf207d428c09b0977dbaeee2 MD5sum: 03a8ea4ffe57e012e82553c2482f1c4a Description: toolbox for vision research -- arch/interpreter independent part Psychophysics Toolbox Version 3 (PTB-3) is a free set of Matlab and GNU/Octave functions for vision research. It makes it easy to synthesize and show accurately controlled visual and auditory stimuli and interact with the observer. . The Psychophysics Toolbox interfaces between Matlab or Octave and the computer hardware. The Psychtoolbox's core routines provide access to the display frame buffer and color lookup table, allow synchronization with the vertical retrace, support millisecond timing, allow access to OpenGL commands, and facilitate the collection of observer responses. Ancillary routines support common needs like color space transformations and the QUEST threshold seeking algorithm. . This package contains architecture independent files (such as .m scripts) Package: python-nipy-doc Source: nipy Version: 0.6.1-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 11968 Depends: neurodebian-popularity-contest, libjs-mathjax, libjs-sphinxdoc (>= 7.2.2) Recommends: python3-nipy Built-Using: sphinx (= 7.2.6-6) Multi-Arch: foreign Homepage: https://nipy.org/nipy/ Priority: optional Section: doc Filename: pool/main/n/nipy/python-nipy-doc_0.6.1-1~nd24.04+1_all.deb Size: 2135934 SHA256: 9d8b8a73ffb12015c12eff419f602f8172c5fda7b0f02fbf0f49654085753b84 SHA1: 275a1bdaed5152aaa436e8a018184469d647ea05 MD5sum: 7f897826df6b6bec98866c4c64d5e2d4 Description: documentation and examples for NiPy This package contains NiPy documentation in various formats (HTML, TXT) including * User manual * Developer guidelines * API documentation Package: python-nipype-doc Source: nipype Version: 1.9.0-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 12996 Depends: neurodebian-popularity-contest, libjs-jquery, libjs-underscore Suggests: python3-nipype Multi-Arch: foreign Homepage: https://nipype.readthedocs.io/en/latest/ Priority: optional Section: doc Filename: pool/main/n/nipype/python-nipype-doc_1.9.0-1~nd24.04+1_all.deb Size: 1236232 SHA256: a4b02b98709aabd3e06f483125a5a9a9cbecb1db66467555a86f441bf398559e SHA1: 805bbc2fb256cbdd62dd8c6e1cd79dd773514cf2 MD5sum: f1c9d21049e724f6363eb5c3aa43ae44 Description: Neuroimaging data analysis pipelines in Python3 -- documentation Nipype interfaces Python to other neuroimaging packages and creates an API for specifying a full analysis pipeline in Python. Currently, it has interfaces for SPM, FSL, AFNI, Freesurfer, but could be extended for other packages (such as lipsia). . This package contains Nipype examples and documentation in various formats. Package: python3-datalad Source: datalad Version: 1.1.5-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 4343 Depends: neurodebian-popularity-contest, git-annex (>= 8.20200309~) | git-annex-standalone (>= 8.20200309~), patool, 7zip (>= 23.01+dfsg-4~) | p7zip-full, python3 (>= 3.7), python3-annexremote, python3-boto3, python3-distro, python3-fasteners (>= 0.14~), python3-gitlab, python3-humanize, python3 (>= 3.10) | python3-importlib-metadata (>= 3.6~), python3 (>= 3.9) | python3-importlib-resources (>= 3.0~), python3-iso8601, python3-keyring, python3-keyrings.alt | python3-keyring (<= 8), python3-msgpack, python3-platformdirs, python3-requests (>= 1.2), python3-secretstorage, python3-typing-extensions (>= 3.10.0.2~), python3-tqdm (>= 4.32.0), python3-chardet, python3-packaging, python3:any Recommends: python3-html5lib, python3-httpretty, python3-lzma, python3-pytest (>= 7.0), python3-pyperclip, python3-vcr Suggests: python3-duecredit, datalad-container, python3-bs4, python3-numpy Breaks: datalad-container (<< 1.1.2) Homepage: https://datalad.org Priority: optional Section: python Filename: pool/main/d/datalad/python3-datalad_1.1.5-1~nd24.04+1_all.deb Size: 899598 SHA256: 29f36381b4053c3efb34e93ccb479c1205904759c0a533b8504479ae75b64e0c SHA1: 230a1f56da7edcd4ff6408f2037ea6927c3f64d1 MD5sum: 6dbb12d6c56d2c0c06118acd36f172a6 Description: data files management and distribution platform DataLad is a data management and distribution platform providing access to a wide range of data resources already available online. Using git-annex as its backend for data logistics it provides following facilities built-in or available through additional extensions . - command line and Python interfaces for manipulation of collections of datasets (install, uninstall, update, publish, save, etc.) and separate files/directories (add, get) . This package installs the module for Python 3, and Recommends install all dependencies necessary for searching and managing datasets, publishing, and testing. If you need base functionality, install without Recommends. Package: python3-mesonpy Source: meson-python Version: 0.17.1-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 873 Depends: neurodebian-popularity-contest, libjs-sphinxdoc (>= 7.2.2), meson (>= 1.2.3), ninja-build, python3 (>= 3.11), python3-packaging, python3-pyproject-metadata (>= 0.7.1), python3-tomli | python3-supported-min (>= 3.11), python3:any Recommends: patchelf Homepage: https://github.com/mesonbuild/meson-python Priority: optional Section: python Filename: pool/main/m/meson-python/python3-mesonpy_0.17.1-1~nd24.04+1_all.deb Size: 108158 SHA256: d5faffdc5fb69bfd2435ebcb09a26c16f9761aba28198079b02e1e312e77d12c SHA1: f9fb21f2c654c2297cf3479593ad840c3e14b8ce MD5sum: d613816d2936316215075a2629c98b14 Description: Meson PEP 517 Python build backend This package enables Python package authors to use Meson as the build backend for their packages. . Meson is a build system designed to increase programmer productivity. It does this by providing a fast, simple and easy to use interface for modern software development tools and practices. Package: python3-nipy Source: nipy Version: 0.6.1-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 3091 Depends: neurodebian-popularity-contest, python3-numpy, python3-nibabel, python3-scipy, python3-sympy, python3-transforms3d, python3:any, python3-nipy-lib (>= 0.6.1-1~nd24.04+1) Recommends: python3-matplotlib, mayavi2 Suggests: python3-mvpa Homepage: https://nipy.org/nipy/ Priority: optional Section: python Filename: pool/main/n/nipy/python3-nipy_0.6.1-1~nd24.04+1_all.deb Size: 730766 SHA256: dd57e5fcf596cacd848a86a65e372477dcedcda594c22f9e7cc2cae70804b03c SHA1: 3c01664fd57cfd550e1301ab0024fdf81b8acdf1 MD5sum: 6a88045eb3955a17665805e7b83480d1 Description: Analysis of structural and functional neuroimaging data NiPy is a Python-based framework for the analysis of structural and functional neuroimaging data. It provides functionality for - General linear model (GLM) statistical analysis - Combined slice time correction and motion correction - General image registration routines with flexible cost functions, optimizers and re-sampling schemes - Image segmentation - Basic visualization of results in 2D and 3D - Basic time series diagnostics - Clustering and activation pattern analysis across subjects - Reproducibility analysis for group studies Package: python3-nipype Source: nipype Version: 1.9.0-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 10890 Depends: neurodebian-popularity-contest, python3-click, python3-dateutil, python3-etelemetry, python3-filelock, python3-looseversion, python3-networkx, python3-nibabel, python3-numpy, python3-packaging, python3-prov, python3-puremagic, python3-rdflib, python3-scipy, python3-simplejson, python3-traits, python3:any, python3-dipy, python3-psutil Recommends: ipython3, python3-pytest, graphviz, python3-xvfbwrapper, mayavi2, python3-pydotplus, python3-pydot, python3-cfflib Suggests: afni, python3-nipy, slicer, matlab-spm8, python3-pyxnat, mne-python, elastix, ants, python3-pytest-xdist, python3-bids Homepage: https://nipype.readthedocs.io/en/latest/ Priority: optional Section: python Filename: pool/main/n/nipype/python3-nipype_1.9.0-1~nd24.04+1_all.deb Size: 1960368 SHA256: f96a64720015249c28b21f6f0455be1a2eb2cf6578dbe8bdcbe0909800be4174 SHA1: 92175b1c11ee3012f6dc334556a71e98e56d9055 MD5sum: 0518b123203e18c6a61d591c704ea1b4 Description: Neuroimaging data analysis pipelines in Python3 Nipype interfaces Python to other neuroimaging packages and creates an API for specifying a full analysis pipeline in Python. Currently, it has interfaces for SPM, FSL, AFNI, Freesurfer, but could be extended for other packages (such as lipsia). Package: python3-pyout Source: python-pyout Version: 0.8.1-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 215 Depends: neurodebian-popularity-contest, python3-blessed, python3-jsonschema (>= 3.0~), python3:any Homepage: https://github.com/pyout/pyout.git Priority: optional Section: python Filename: pool/main/p/python-pyout/python3-pyout_0.8.1-1~nd24.04+1_all.deb Size: 42102 SHA256: 311d28e2d0e192f2dbc331994cf8ad3b85161e62ebd0210fd8e63491f2041242 SHA1: 4b07d59e06c619fff746604da453e939358de24f MD5sum: d9487337294354bb594ba708e0e2184b Description: Terminal styling for tabular data pyout is a Python package that defines an interface for writing structured records as a table in a terminal. It is being developed to replace custom code for displaying tabular data in in ReproMan and DataLad. . A primary goal of the interface is the separation of content from style and presentation. Current capabilities include . - automatic width adjustment and updating of previous values - styling based on a field value or specified interval - defining a transform function that maps a raw value to the displayed value - defining a summary function that generates a summary of a column (e.g., value totals) - support for delayed, asynchronous values that are added to the table as they come in Package: python3-tqdm Source: tqdm Version: 4.66.5-1~nd24.04+1 Architecture: all Maintainer: NeuroDebian Maintainers Installed-Size: 313 Depends: neurodebian-popularity-contest, python3:any Homepage: https://tqdm.github.io Priority: optional Section: python Filename: pool/main/t/tqdm/python3-tqdm_4.66.5-1~nd24.04+1_all.deb Size: 91578 SHA256: 781b9b414333d45e96d659612971aa7731c629ecae2ce6129da48a79c1323b05 SHA1: 6e7e75ce2780271db7022fa57b082a017bdb1c87 MD5sum: b23d1f8ca1bc4b1d2256d5a595bfa66d Description: fast, extensible progress bar for Python 3 and CLI tool tqdm (read taqadum, تقدّم) means “progress” in Arabic. tqdm instantly makes your loops show a smart progress meter, just by wrapping any iterable with "tqdm(iterable)". . This package contains the Python 3 version of tqdm and its command-line tool.