+/* Copyright (c) 2011 Peter Troshin\r
+ * \r
+ * JAva Bioinformatics Analysis Web Services (JABAWS) @version: 2.0 \r
+ * \r
+ * This library is free software; you can redistribute it and/or modify it under the terms of the\r
+ * Apache License version 2 as published by the Apache Software Foundation\r
+ * \r
+ * This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without\r
+ * even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache \r
+ * License for more details.\r
+ * \r
+ * A copy of the license is in apache_license.txt. It is also available here:\r
+ * @see: http://www.apache.org/licenses/LICENSE-2.0.txt\r
+ * \r
+ * Any republication or derived work distributed in source code form\r
+ * must include this copyright and license notice.\r
+ */\r
package compbio.ws.client;\r
\r
import static compbio.ws.client.Constraints.pseparator;\r
static File getFile(String[] cmd, String key, boolean mustExist)\r
throws IOException {\r
assert key != null && key.trim().length() != 0;\r
- for (int i = 0; i < cmd.length; i++) {\r
- String filename = cmd[i];\r
+ for (String c : cmd) {\r
+ String filename = c;\r
filename = filename.trim();\r
if (filename.toLowerCase().startsWith(key + pseparator)) {\r
filename = filename.substring((key + pseparator).length());\r
* the AACon scores to output\r
*/\r
static void writeOut(Writer writer, ScoreManager results) {\r
+ if (results == null) {\r
+ return;\r
+ }\r
try {\r
results.writeOut(writer);\r
} catch (IOException e) {\r