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Radmeth verbose update #292

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Merged
andrewdavidsmith merged 1 commit into from
Sep 10, 2025
Merged

Radmeth verbose update #292

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18 changes: 16 additions & 2 deletions src/radmeth/radmeth.cpp
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Original file line number Diff line number Diff line change
@@ -1,7 +1,7 @@
/* Copyright (C) 2013-2025 Andrew D Smith
*
* Author: Andrew D. Smith
* Contributors: Andrew D. Smith and Egor Dolzhenko and Guilherme Sena
* Contributors: Egor Dolzhenko and Guilherme Sena
*
* This program is free software: you can redistribute it and/or
* modify it under the terms of the GNU General Public License as
Expand Down Expand Up @@ -410,7 +410,7 @@ main_radmeth(int argc, char *argv[]) {
/****************** END COMMAND LINE OPTIONS *****************/

if (verbose)
std::cerr << "design table filename: " << design_filename << '\n';
std::cerr << "design table filename: " << design_filename << "\n\n";

// initialize full design matrix from file
Regression alt_model;
Expand All @@ -435,6 +435,20 @@ main_radmeth(int argc, char *argv[]) {
if (verbose)
std::cerr << "Null model:\n" << null_model.design << '\n';

// clang-format off
if (verbose)
std::cerr << "Output columns:\n"
<< "(1) chrom\n"
<< "(2) position\n"
<< "(3) strand\n"
<< "(4) cytosine context\n"
<< "(5) p-value\n"
<< "(6) estimated methylation 0\n"
<< "(7) estimated methylation 1\n"
<< "(8) estimated dispersion\n"
<< "estimated methylation is for test factor value (0 or 1)\n"
<< '\n';
// clang-format on
const auto start_time = std::chrono::steady_clock::now();
radmeth(show_progress, more_na_info, n_threads, table_filename, outfile,
alt_model, null_model, test_factor_idx);
Expand Down