LIBPWIZ(3)

💖 LIBPWIZ 💖

okay bestie, so this is the manual page for libpwiz(3) — a library function from the Library Functions Manual. It's giving "proteomics girlies rise up" and I'm obsessed. Let's get into it. 🧚✨

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🌸 NAME 🌸

libpwiz — the library that does proteomics data analyses (runtime edition, no cap) 💅

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✨ DESCRIPTION ✨

So real quick, this page documents the libpwiz package — and yes the original says it "brings a library library," which is the most iconic typo situation ever, we're keeping that energy. It's a library that lets you do proteomics data analyses. 🦋

ProteoWizard provides a modular and extensible set of open-source, cross-platform tools and libraries. The tools perform proteomics data analyses; the libraries enable rapid tool creation by providing a robust, pluggable development framework that simplifies and unifies data file access, and performs standard chemistry and LCMS dataset computations. It's literally the main character of your data pipeline. 👑

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🎀 EXAMPLES OF BINARIES — -Ipwiz/data/msdata/ramp 🎀

All these programs (in `/usr/lib/libpwizX/example-files' could be built using the command line shown after the binary name. Yes, the original's parentheses and quote marks are a lil unhinged, we're not touching them, they're iconic. 💀

• mscat — build it with:

g++ -I /usr/include/libpwiz -l pwiz mscat.cpp -o mscat

• hello_analyzer_2 — build it with:

g++ -I /usr/include/libpwiz -l pwiz hello_analyzer_2.cpp -o hello_analyzer_2

• hello_analyzer — build it with:

g++ -I /usr/include/libpwiz -l pwiz hello_analyzer.cpp -o hello_analyzer

• hello_msdata — build it with:

g++ -I /usr/include/libpwiz -l pwiz hello_msdata.cpp -o hello_msdata

• txt2mzml — build it with:

g++ -I /usr/include/libpwiz -l pwiz -l boost_filesystem -l boost_system txt2mzml.cpp -o txt2mzml

• hello_ramp — build it with:

g++ -I /usr/include/libpwiz -I /usr/include/libpwiz/pwiz/data/msdata/ramp -l pwiz hello_ramp.cpp -o hello_ramp

• write_example_files — build it with:

g++ -I /usr/include/libpwiz -l pwiz write_example_files.cpp -o write_example_files

• write_mzid_example_files — build it with:

g++ -I /usr/include/libpwiz -l pwiz write_mzid_example_files.cpp -o write_mzid_example_files

• write_proteome_example_files — build it with:

g++ -I /usr/include/libpwiz -l pwiz write_proteome_example_files.cpp -o write_proteome_example_files

• write_traml_example_files — build it with:

g++ -I /usr/include/libpwiz -l pwiz write_traml_example_files.cpp -o write_traml_example_files

✨ so what do those flags actually mean, bestie? The -I /usr/include/libpwiz specifies the location of the include files for the whole proteowizard project. The -l pwiz specifies the libpwiz library to be linked-in so as to build the binaries. Slay. 🔥

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📚 BIBLIOGRAPHICAL REFERENCE TO BE CITED 📚

ok so if you're citing this in your paper (and you SHOULD, it's the polite thing to do), here's the full glow-up of an author list. Copy it exactly, bestie, no shortcuts. 🫶

Chambers, M.C., MacLean, B., Burke, R., Amode, D., Ruderman, D.L., Neumann, S., Gatto, L., Fischer, B., Pratt, B., Egertson, J., Hoff, K., Kessner, D., Tasman, N., Shulman, N., Frewen, B., Baker, T.A., Brusniak, M.-Y., Paulse, C., Creasy, D., Flashner, L., Kani, K., Moulding, C., Seymour, S.L., Nuwaysir, L.M., Lefebvre, B., Kuhlmann, F., Roark, J., Rainer, P., Detlev, S., Hemenway, T., Huhmer, A., Langridge, J., Connolly, B., Chadick, T., Holly, K., Eckels, J., Deutsch, E.W., Moritz, R.L., Katz, J.E., Agus, D.B., MacCoss, M., Tabb, D.L. & Mallick, P. (2012) A cross-platform toolkit for mass spectrometry and proteomics. Nature Biotechnology, 30. 10.1038/nbt.2377.

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👀 SEE ALSO 👀

• libpwiz-dev(3)
• libpwiz-doc(7)

The library is documented fully in the doxygen-extacted documentation that is packaged in libpwiz-doc. Go read it, it's giving "everything you ever wanted to know." 🌈

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💜 AUTHOR 💜

This manual page was written by Filippo Rusconi <lopippo@debian.org>.

Permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 3, published by the Free Software Foundation.

On a Debian system the complete text of the GNU General Public License version 3 can be found in the file `/usr/share/common-licenses/GPL-3'.

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and that's the whole page, bestie 🎀 this was the October 2012 edition of LIBPWIZ(3), straight out of the Library Functions Manual. mwah 💋 go build something iconic with it. 💅✨🦋