Updated conf merger script to just merge everything, and normalize the line endings so git doesn't complain.

fml/conf/methods.csv

@@ -1,9 +1,4 @@
 searge,name,side,desc
-func_74611_a,getStringValue,0,Gets a String by navigating the hierarchy below this node.
-func_74612_b,getArrayNode,0,"Gets a List of JsonNodes, representing a JSON array, by navigating the hierarchy below this node."
-func_74614_d,getFields,0,return the fields associated with this node
-func_74615_c,getText,0,
-func_74789_a,parse,0,Parse the specified JSON String
 func_70000_a,addServerStatsToSnooper,2,
 func_70001_b,addServerTypeToSnooper,2,
 func_70002_Q,isSnooperEnabled,2,Returns whether snooping is enabled or not.
@@ -1894,7 +1889,11 @@ func_74603_a,withElement,2,Adds the given element to the array that will be buil
 func_74604_a,build,2,
 func_74608_a,withFieldBuilder,2,
 func_74610_b,getElements,2,
+func_74611_a,getStringValue,2,Gets a String by navigating the hierarchy below this node.
+func_74612_b,getArrayNode,2,"Gets a List of JsonNodes, representing a JSON array, by navigating the hierarchy below this node."
 func_74613_a,wrapExceptionsFor,2,
+func_74614_d,getFields,2,return the fields associated with this node
+func_74615_c,getText,2,
 func_74616_a,getType,2,
 func_74618_a,asList,2,
 func_74628_a,shortForm,2,
@@ -1991,6 +1990,7 @@ func_74785_a,format,2,
 func_74786_a,formatJsonNode,2,
 func_74787_a,format,2,
 func_74788_a,parse,2,Parse the character stream from the specified Reader into a JsonRootNode object.
+func_74789_a,parse,2,Parse the specified JSON String
 func_74792_a,decompress,2,
 func_74793_a,safeWrite,2,
 func_74794_a,read,2,Reads from a CompressedStream.

fml/conf/params.csv

@@ -1,23 +1,4 @@
 param,name,side
-p_79000_1_,par1IUpdatePlayerListBox,1
-p_79003_0_,par0DedicatedServer,1
-p_79004_0_,par0ServerGUI,1
-p_79013_0_,par0GuiStatsComponent,1
-p_79015_1_,par1ArrayOfLong,1
-p_actionPerformed_1_,par1ActionEvent,1
-p_focusGained_1_,par1FocusEvent,1
-p_i4100_1_,par1DedicatedServer,1
-p_i4101_1_,par1GuiLogOutputHandler,1
-p_i4102_1_,par1JTextArea,1
-p_i4103_1_,par1MinecraftServer,1
-p_i4104_1_,par1ServerGUI,1
-p_i4104_2_,par2JTextField,1
-p_i4105_1_,par1MinecraftServer,1
-p_i4106_1_,par1DedicatedServer,1
-p_i4107_1_,par1ServerGUI,1
-p_i4108_1_,par1DedicatedServer,1
-p_i4109_1_,par1GuiStatsComponent,1
-p_publish_1_,par1LogRecord,1
 p_70000_1_,par1PlayerUsageSnooper,2
 p_70001_1_,par1PlayerUsageSnooper,2
 p_70003_1_,par1Str,2
@@ -6534,8 +6515,14 @@ p_78944_1_,par1WorldRenderer,2
 p_78944_2_,par2WorldRenderer,2
 p_78946_1_,par1WorldRenderer,2
 p_78946_2_,par2WorldRenderer,2
+p_79000_1_,par1IUpdatePlayerListBox,2
+p_79003_0_,par0DedicatedServer,2
+p_79004_0_,par0ServerGUI,2
+p_79013_0_,par0GuiStatsComponent,2
+p_79015_1_,par1ArrayOfLong,2
 p_accept_1_,par1File,2
 p_accept_2_,par2Str,2
+p_actionPerformed_1_,par1ActionEvent,2
 p_appletResize_1_,par1,2
 p_appletResize_2_,par2,2
 p_compareTo_1_,par1Obj,2
@@ -6544,6 +6531,7 @@ p_compare_2_,par2Obj,2
 p_containsKey_1_,par1Obj,2
 p_containsValue_1_,par1Obj,2
 p_equals_1_,par1Obj,2
+p_focusGained_1_,par1FocusEvent,2
 p_format_1_,par1LogRecord,2
 p_getArrayNode_1_,par1ArrayOfObj,2
 p_getParameter_1_,par1Str,2
@@ -9124,12 +9112,24 @@ p_i4048_1_,par1Str,2
 p_i4049_1_,par1Str,2
 p_i4049_2_,par2Str,2
 p_i4050_1_,par1BouncyCastleProvider,2
+p_i4100_1_,par1DedicatedServer,2
+p_i4101_1_,par1GuiLogOutputHandler,2
+p_i4102_1_,par1JTextArea,2
+p_i4103_1_,par1MinecraftServer,2
+p_i4104_1_,par1ServerGUI,2
+p_i4104_2_,par2JTextField,2
+p_i4105_1_,par1MinecraftServer,2
+p_i4106_1_,par1DedicatedServer,2
+p_i4107_1_,par1ServerGUI,2
+p_i4108_1_,par1DedicatedServer,2
+p_i4109_1_,par1GuiStatsComponent,2
 p_implies_1_,par1Permission,2
 p_init_1_,par1,2
 p_init_2_,par2CipherParameters,2
 p_main_0_,par0ArrayOfStr,2
 p_paint_1_,par1Graphics,2
 p_parse_1_,par1Str,2
+p_publish_1_,par1LogRecord,2
 p_putAll_1_,par1Map,2
 p_put_1_,par1Obj,2
 p_put_2_,par2Obj,2

fml/install/fml.py

@@ -219,11 +219,6 @@ def setup_fml(fml_dir, mcp_dir):
     updatemd5_side(commands, SERVER)
     reset_logger()
         
-    #Delete /common/cpw to get rid of the Side/SideOnly classes used in decompilation
-    cpw_dir = os.path.join(mcp_dir, 'src', 'common', 'cpw')
-    if os.path.isdir(cpw_dir):
-        shutil.rmtree(cpw_dir)
-        
     os.chdir(fml_dir)
     
 def merge_client_server(mcp_dir):
@@ -273,6 +268,11 @@ def apply_fml_patches(fml_dir, mcp_dir, src_dir, copy_files=True):
     has_client = os.path.isdir(os.path.join(src_dir, 'minecraft'))
     has_server = os.path.isdir(os.path.join(src_dir, 'minecraft_server'))
     
+    #Delete /common/cpw to get rid of the Side/SideOnly classes used in decompilation
+    cpw_dir = os.path.join(src_dir, 'common', 'cpw')
+    if os.path.isdir(cpw_dir):
+        shutil.rmtree(cpw_dir)
+        
     #patch files
     print 'Applying Forge ModLoader patches'
     sys.stdout.flush()
@@ -528,6 +528,15 @@ def setup_mcp(fml_dir, mcp_dir, dont_gen_conf=True):
     print 'Fixing MCP Workspace'
     merge_tree(os.path.join(fml_dir, 'eclipse'), os.path.join(mcp_dir, 'eclipse'))
 
+def normaliselines(in_filename):
+    in_filename = os.path.normpath(in_filename)
+    tmp_filename = in_filename + '.tmp'
+
+    with open(in_filename, 'rb') as in_file:
+        with open(tmp_filename, 'wb') as out_file:
+            out_file.write(in_file.read().replace('\r\n', '\n'))
+
+    shutil.move(tmp_filename, in_filename)
 
 def get_conf_copy(mcp_dir, fml_dir):
     #Lets grab the files we dont work on
@@ -539,6 +548,7 @@ def get_conf_copy(mcp_dir, fml_dir):
         if os.path.exists(dst_file):
             os.remove(dst_file)
         shutil.copy(src_file, dst_file)
+        normaliselines(dst_file)
         print 'Grabbing: ' + src_file
         
     ff_server = os.path.normpath(os.path.join(fml_dir, 'conf', 'patches', 'minecraft_server_ff.patch'))
@@ -558,7 +568,7 @@ def get_conf_copy(mcp_dir, fml_dir):
         '          int var4 = p_77874_1_.func_72841_b("map");'
     ]
     os.remove(ff_server)
-    with open(ff_server, 'w') as f:
+    with open(ff_server, 'wb') as f:
         for line in data:
             f.write(line.rstrip('\r\n') + '\n')
 
@@ -615,7 +625,7 @@ def gen_merged_srg(mcp_dir, fml_dir):
             common[type][key] = value #+ ' #S'
             
     #Print joined retroguard files
-    with open(os.path.join(fml_dir, 'conf', 'joined.srg'), 'w') as f:
+    with open(os.path.join(fml_dir, 'conf', 'joined.srg'), 'wb') as f:
         for type in ['PK:', 'CL:', 'FD:', 'MD:']:
             for key in sorted(common[type]):
                 f.write('%s %s %s\n' % (type, key, common[type][key]))
@@ -660,7 +670,7 @@ def gen_merged_exc(mcp_dir, fml_dir):
     joined = dict(common.items() + server.items())
     
     #Print joined mcinjector files
-    with open(os.path.join(fml_dir, 'conf', 'joined.exc'), 'w') as f:
+    with open(os.path.join(fml_dir, 'conf', 'joined.exc'), 'wb') as f:
         for key in sorted(joined):
             f.write('%s=%s\n' % (key, joined[key]))
             
@@ -699,22 +709,14 @@ def gen_shared_searge_names(common_srg, common_exc):
 def gen_merged_csv(common_map, in_file, out_file, main_key='searge'):
     reader = csv.DictReader(open(in_file, 'r'))
     print 'Generating merged csv for %s' % os.path.basename(in_file)
-    sides = {'client': [], 'server': [], 'common': []}
+    common = []
     added = []
     for row in reader:
-        side = int(row['side'])
-        if row[main_key] in common_map:
         if not row[main_key] in added:
             row['side'] = '2'
-                sides['common'].append(row)
+            common.append(row)
             added.append(row[main_key])
-        elif side == 0:
-            sides['client'].append(row)
-        else:
-            sides['server'].append(row)
-            
-    writer = csv.DictWriter(open(out_file, 'wb'), fieldnames=reader.fieldnames)
+    writer = csv.DictWriter(open(out_file, 'wb'), fieldnames=reader.fieldnames, lineterminator='\n')
     writer.writeheader()
-    for key in ['client', 'server', 'common']:
-        for row in sorted(sides[key], key=lambda row: row[main_key]):
+    for row in sorted(common, key=lambda row: row[main_key]):
         writer.writerow(row)