From adc69bd4e1543a229fbee543940f8b92fd499682 Mon Sep 17 00:00:00 2001
From: Ranke Johannes <johannes.ranke@agroscope.admin.ch>
Date: Wed, 22 Oct 2025 10:35:37 +0200
Subject: Adapt to new SMILES names at PubChem

This may break some code using the old smiles names "PubChem_Canonical"
and "PubChem_Isomeric" instead of the new smiles names "PubChem"
(including isotopic and stereochemical information) and
"PubChem_Connectivity" (only containing connectivity, but still
canonical).

Further changes in this commit:
- A fix to the test target in the makefile
- Use markdown syntax for link to objects from other packages in the
  documentation
- Adapt the tests
- Increase test coverage a bit
---
 GNUmakefile | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'GNUmakefile')

diff --git a/GNUmakefile b/GNUmakefile
index 2e1ddf8..6bbb53f 100644
--- a/GNUmakefile
+++ b/GNUmakefile
@@ -32,7 +32,7 @@ build: roxy $(TGZ)
 
 test: build
 	"$(RBIN)/Rscript" -e 'library(devtools); devtools::test()' 2>&1 | tee log/test.log
-	sed -i -e "s/\r.*\r//" test.log
+	sed -i -e "s/\r.*\r//" log/test.log
 
 quickcheck: build
 	_R_CHECK_CRAN_INCOMING_REMOTE_=false "$(RBIN)/R" CMD check $(TGZ) --no-tests
-- 
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