split files existence check to individual checks to avoid repeated li…

…nking problems
soedinglab · Jul 11, 2019 · 64be551 · 64be551
1 parent da18dca
commit 64be551
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Showing 3 changed files with 10 additions and 1 deletion.
diff --git a/data/assembler.sh b/data/assembler.sh
@@ -170,6 +170,9 @@ fi
 # create fasta output
 if notExists "${RESULT}_only_assembled"; then
     ln -s "${RESULT}" "${RESULT}_only_assembled"
+fi
+
+if notExists "${RESULT}_only_assembled.dbtype"; then
     ln -s "${RESULT}.dbtype" "${RESULT}_only_assembled.dbtype"
 fi
 

diff --git a/data/hybridassembler.sh b/data/hybridassembler.sh
@@ -116,6 +116,9 @@ fi
 
 if notExists "${RESULT_NUCL}_only_assembled"; then
     ln -s "${RESULT_NUCL}" "${RESULT_NUCL}_only_assembled"
+fi
+
+if notExists "${RESULT_NUCL}_only_assembled.dbtype"; then
     ln -s "${RESULT_NUCL}.dbtype" "${RESULT_NUCL}_only_assembled.dbtype"
 fi
 

diff --git a/data/nuclassembler.sh b/data/nuclassembler.sh
@@ -77,7 +77,10 @@ fi
 # create fasta output
 if notExists "${RESULT}_only_assembled"; then
     ln -s "${RESULT}" "${RESULT}_only_assembled"
-    ln -s "${RESULT},dbtype" "${RESULT}_only_assembled.dbtype"
+fi
+
+if notExists "${RESULT}_only_assembled.dbtype"; then
+    ln -s "${RESULT}.dbtype" "${RESULT}_only_assembled.dbtype"
 fi
 
 if notExists "${RESULT}_only_assembled_h"; then