From f59ede29be3cdebbb4d43deed37edd3456ae83cf Mon Sep 17 00:00:00 2001
From: Matthias Bernt <m.bernt@ufz.de>
Date: Thu, 22 Feb 2024 16:48:33 +0100
Subject: [PATCH] stash

---
 tools/openms/aux/macros_test.xml         | 7 -------
 tools/openms/get_tests.py                | 2 +-
 tools/openms/prepare_test_data_manual.sh | 4 +---
 3 files changed, 2 insertions(+), 11 deletions(-)

diff --git a/tools/openms/aux/macros_test.xml b/tools/openms/aux/macros_test.xml
index 024eab8b6..925983829 100644
--- a/tools/openms/aux/macros_test.xml
+++ b/tools/openms/aux/macros_test.xml
@@ -36,13 +36,6 @@
     <output name="html" ftype="html" value="CVInspector.html"/>
   </test>
 </xml>
-<xml name="manutest_DeMeanderize">
-  <test expect_num_outputs="1"><!-- test with the output of a MSsimulator output generated by a test below -->
-    <param name="adv_opts|test" value="true"/>
-    <param name="in" ftype="mzml" value="MSsimulator_MALDI.mzml"/>
-	<output name="out" ftype="mzml" value="DeMeanderize.mzml"/>
-  </test>
-</xml>
 <xml name="manutest_Digestor">
   <test expect_num_outputs="1"><!-- just using some random fasta, in contrast to DigestorMotif idXML/fasta output possible, testing for the non-default fasta option -->
     <param name="adv_opts|test" value="true"/>
diff --git a/tools/openms/get_tests.py b/tools/openms/get_tests.py
index 01c3c2c5e..68cc174a4 100755
--- a/tools/openms/get_tests.py
+++ b/tools/openms/get_tests.py
@@ -307,7 +307,7 @@ class CTDConverterArgs:
 
             # join test statements that are split over multiple lines
             if line.endswith(")"):
-                jline += line[:-1]
+                jline += " " + line[:-1]
             else:
                 jline = line
                 continue
diff --git a/tools/openms/prepare_test_data_manual.sh b/tools/openms/prepare_test_data_manual.sh
index d288cad99..389f4cd60 100755
--- a/tools/openms/prepare_test_data_manual.sh
+++ b/tools/openms/prepare_test_data_manual.sh
@@ -8,9 +8,7 @@ if [[ "$?" -ne "0" ]]; then >&2 echo 'ClusterMassTraces failed'; >&2 echo -e "st
 CVInspector -test -cv_files CHEMISTRY/XLMOD.obo -cv_names XLMOD -mapping_file MAPPING/ms-mapping.xml -html CVInspector.html > CVInspector.stdout 2> stderr
 if [[ "$?" -ne "0" ]]; then >&2 echo 'CVInspector failed'; >&2 echo -e "stderr:\n$(cat stderr | sed 's/^/    /')"; fi
 
-# TODO new test data (old was generated with MSSimulator)
-# DeMeanderize -test -in MSsimulator_MALDI.mzml -out DeMeanderize.mzml > DeMeanderize.stdout 2> stderr
-# if [[ "$?" -ne "0" ]]; then >&2 echo 'DeMeanderize failed'; >&2 echo -e "stderr:\n$(cat stderr | sed 's/^/    /')"; fi
+# TODO DeMeanderize
 
 # TODO DigestorMotif