X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=mussa.git;a=blobdiff_plain;f=mussa_exceptions.hpp;h=e85b2d98687e5a50304b09cc654c2f8349f1b0f9;hp=701c5e5d56f3bd96cc073bf4b9fc703d933d69d2;hb=HEAD;hpb=198f7c18fd0b5fa84528e9b28a84269c3a856cc4

diff --git a/mussa_exceptions.hpp b/mussa_exceptions.hpp
index 701c5e5..e85b2d9 100644
--- a/mussa_exceptions.hpp
+++ b/mussa_exceptions.hpp
@@ -1,27 +1,138 @@
 #ifndef _MUSSA_EXCEPTIONS_H_
 #define _MUSSA_EXCEPTIONS_H_
 #include <stdexcept>
+#include <boost/filesystem/exception.hpp>
 
-//! Error processing commandline arguments
-class cmdline_error : public std::runtime_error
+//! base mussa exception
+class mussa_error : public std::runtime_error
 {
 public:
-  explicit cmdline_error(const std::string& msg): std::runtime_error(msg) {};
+  explicit mussa_error(const std::string& msg): std::runtime_error(msg) {};
 };
 
+//! Error processing commandline arguments
+class cmdline_error : public mussa_error
+{
+public:
+  explicit cmdline_error(const std::string& msg): mussa_error(msg) {};
+};
+//! Error trying to save 
+class mussa_save_error : public mussa_error
+{
+public:
+  explicit mussa_save_error(const std::string& msg) :
+    mussa_error(msg) {};
+};
 //! Error loading information
-class mussa_load_error : public std::runtime_error
+class mussa_load_error : public mussa_error
 {
 public:
   explicit mussa_load_error(const std::string& msg) : 
-    std::runtime_error(msg) {};
+    mussa_error(msg) {};
+};
+
+//! error doing a key lookup in the annotations class
+class annotations_key_error : public mussa_error {
+public:
+  explicit annotations_key_error(const std::string& msg) : 
+    mussa_error(msg) {};
+};
+
+//! Error loading sequence
+class sequence_load_error : public mussa_load_error
+{
+public:
+  explicit sequence_load_error(const std::string& msg) :
+    mussa_load_error(msg) {};
+};
+
+// Empty sequence
+class sequence_empty_error : public sequence_load_error 
+{
+public:
+  explicit sequence_empty_error(const std::string& msg) :
+    sequence_load_error(msg) {};
+};
+
+// Empty fasta file
+class sequence_empty_file_error : public sequence_load_error 
+{
+public:
+  explicit sequence_empty_file_error(const std::string& msg) :
+    sequence_load_error(msg) {};
+};
+
+// Empty unrecognized characters
+class sequence_invalid_load_error : public sequence_load_error 
+{
+public:
+  explicit sequence_invalid_load_error(const std::string& msg) :
+    sequence_load_error(msg) {};
+};
+
+//! Incomprehensible comparison
+class sequence_invalid_comparison : public mussa_error
+{
+public:
+  explicit sequence_invalid_comparison(const std::string& msg) :
+    mussa_error(msg) {};
+};
+
+//! Invalid strand identifier
+class sequence_invalid_strand : public mussa_error
+{
+public:
+  explicit sequence_invalid_strand(const std::string& msg) :
+    mussa_error(msg) {};
+};
+
+//! Error loading sequence annotation
+class annotation_load_error : public sequence_load_error
+{
+public:
+  explicit annotation_load_error(const std::string& msg) :
+    sequence_load_error(msg) {};
 };
 
 //! failure running analysis
-class mussa_analysis_error : public std::runtime_error
+class mussa_analysis_error : public mussa_error
 {
 public:
   explicit mussa_analysis_error(const std::string& msg) : 
-    std::runtime_error(msg) {};
+    mussa_error(msg) {};
+};
+
+//! failure running seqcomp
+class seqcomp_error : public mussa_analysis_error
+{
+public:
+  explicit seqcomp_error(const std::string& msg) : 
+    mussa_analysis_error(msg) {};
+};
+
+//! couldn't normalize a motif
+/*
+class motif_normalize_error : public mussa_error
+{
+public:
+  explicit motif_normalize_error(const std::string& msg) : 
+    mussa_error(msg) {};
+};
+*/
+
+//! something went wrong loading a motif  
+class motif_load_error : public mussa_load_error
+{
+public:
+  explicit motif_load_error(const std::string& msg) :
+    mussa_load_error(msg) {};
+};
+
+//! ConservedPath::nextTo had two paths that weren't the same size
+class conserved_path_size_mismatch : public mussa_error
+{
+public:
+  explicit conserved_path_size_mismatch(const std::string& msg) :
+    mussa_error(msg) {};
 };
 #endif