From 8c83d3e78c8738afcc2db12e98b26f6d58a6d9fa Mon Sep 17 00:00:00 2001
From: Xavier Robin <xavier.robin@unibas.ch>
Date: Fri, 17 Mar 2023 11:17:25 +0100
Subject: [PATCH] fix: SCHWED-5481 handle SDF files with CRLF endings
---
modules/io/src/mol/sdf_reader.cc | 7 +++++++
1 file changed, 7 insertions(+)
diff --git a/modules/io/src/mol/sdf_reader.cc b/modules/io/src/mol/sdf_reader.cc
index c8394ab77..064c14f29 100644
--- a/modules/io/src/mol/sdf_reader.cc
+++ b/modules/io/src/mol/sdf_reader.cc
@@ -61,6 +61,13 @@ void SDFReader::Import(mol::EntityHandle& ent)
while (std::getline(instream_,line)) {
++line_num;
+ // std::getline removes EOL character but may leave a DOS CR (\r) in Unix
+ size_t cr_pos = line.find("\r");
+ if (cr_pos != String::npos) {
+ LOG_TRACE( "Remove CR@" << cr_pos);
+ line.erase(cr_pos);
+ }
+
if (line_num<=4) {
ParseAndAddHeader(line, line_num, ent, editor);
} else if (line_num<=atom_count_+4) {
--
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