From 80cec4b92a49540c657bd7afa7830bad46a60ece Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Thu, 30 Oct 2025 10:08:31 +0000 Subject: [PATCH 1/4] Initial plan From a58ab885ee7ebd1caabf0a2eb8c9b63ff52a4486 Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Thu, 30 Oct 2025 10:13:29 +0000 Subject: [PATCH 2/4] Remove broken link to TOPP_MascotAdapter.html from glossary Co-authored-by: timosachsenberg <5803621+timosachsenberg@users.noreply.github.com> --- docs/manual/glossary.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/manual/glossary.md b/docs/manual/glossary.md index abc36a99..1d44b3b8 100644 --- a/docs/manual/glossary.md +++ b/docs/manual/glossary.md @@ -105,7 +105,7 @@ proteins muscle to the enzymes that catalyze the digestion of food to synthesizing and replicating DNA. Mascot - A so-called search engine: It identifies peptide sequences from MS/MS spectra. Please find more information in the {term}`TOPP` [Documentation](https://openms.de/current_doxygen/html/TOPP_MascotAdapter.html). + A so-called search engine: It identifies peptide sequences from MS/MS spectra. HPLC-MS Data produced by High performance liquid chromatography (HPLC) separates components of a mixture, whereas mass From c624eef31d57cfb7317dc9020733aa41e9bd143b Mon Sep 17 00:00:00 2001 From: Timo Sachsenberg Date: Thu, 30 Oct 2025 11:32:54 +0100 Subject: [PATCH 3/4] Update docs/manual/glossary.md --- docs/manual/glossary.md | 1 - 1 file changed, 1 deletion(-) diff --git a/docs/manual/glossary.md b/docs/manual/glossary.md index 1d44b3b8..9fbfb53e 100644 --- a/docs/manual/glossary.md +++ b/docs/manual/glossary.md @@ -104,7 +104,6 @@ proteins Proteins are vital parts of living organisms, with many functions, for example composing the structural fibers of muscle to the enzymes that catalyze the digestion of food to synthesizing and replicating DNA. -Mascot A so-called search engine: It identifies peptide sequences from MS/MS spectra. HPLC-MS From 14e06a6f65877bfce12f73097e191cec2b52222f Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Thu, 30 Oct 2025 17:44:36 +0000 Subject: [PATCH 4/4] Restore Mascot term name in glossary Co-authored-by: timosachsenberg <5803621+timosachsenberg@users.noreply.github.com> --- docs/manual/glossary.md | 1 + 1 file changed, 1 insertion(+) diff --git a/docs/manual/glossary.md b/docs/manual/glossary.md index 9fbfb53e..1d44b3b8 100644 --- a/docs/manual/glossary.md +++ b/docs/manual/glossary.md @@ -104,6 +104,7 @@ proteins Proteins are vital parts of living organisms, with many functions, for example composing the structural fibers of muscle to the enzymes that catalyze the digestion of food to synthesizing and replicating DNA. +Mascot A so-called search engine: It identifies peptide sequences from MS/MS spectra. HPLC-MS