From: Michael R. Crusoe <michael.crusoe@gmail.com>
Subject: Spelling fixes
--- spades.orig/manual.html
+++ spades/manual.html
@@ -750,7 +750,7 @@
 Make sure that files with right reads are given in the same order as corresponding files with left reads.
 
 <p>
-    For example, if you have one paired-end library splitted into two pairs of files:
+    For example, if you have one paired-end library split into two pairs of files:
 <pre class="code">
 <code>
     lib_pe1_left_1.fastq
@@ -979,7 +979,7 @@
 </pre>
 
 <p>
-    If a single-read library is splitted into several files:
+    If a single-read library is split into several files:
 
 <pre class="code">
 <code>
@@ -1128,7 +1128,7 @@
 </pre>
 
 <p>
-Since the current version of Bandage does not accept paths with gaps, paths corresponding contigs/scaffolds jumping over a gap in the assembly graph are splitted by semicolon at the gap positions. For example, the following record
+Since the current version of Bandage does not accept paths with gaps, paths corresponding contigs/scaffolds jumping over a gap in the assembly graph are split by semicolon at the gap positions. For example, the following record
 <pre>
     <code>
     NODE_3_length_237403_cov_243.207_ID_45
--- spades.orig/src/common/assembly_graph/stats/picture_dump.hpp
+++ spades/src/common/assembly_graph/stats/picture_dump.hpp
@@ -123,7 +123,7 @@
         INFO("Genome mapping results:");
         INFO("Covered k+1-mers:" << covered_kp1mers << " of " << (genome_.size() - k_) << " which is "
              << (100.0 * (double) covered_kp1mers / (double) (genome_.size() - k_)) << "%");
-        INFO("Covered k+1-mers form " << break_number + 1 << " contigious parts");
+        INFO("Covered k+1-mers form " << break_number + 1 << " contiguous parts");
         INFO("Continuity failtures " << fail);
     }
 };
--- spades.orig/src/projects/dipspades/kmer_gluing/equal_sequence_gluer.hpp
+++ spades/src/projects/dipspades/kmer_gluing/equal_sequence_gluer.hpp
@@ -74,9 +74,9 @@
                 pos2 = graph_.length(edge1) - tmp - 1;
             }
             INFO(pos1 << " " << pos2 << " " << graph_.length(edge1))
-            TRACE("Edge1 " << graph_.int_id(edge1) << " will be splitted");
+            TRACE("Edge1 " << graph_.int_id(edge1) << " will be split");
             pair<EdgeId, EdgeId> split_edges = graph_.SplitEdge(edge1, pos1 + 1);
-            TRACE("Splitted pair was created");
+            TRACE("Split pair was created");
             TRACE("New edge1: " << graph_.int_id(split_edges.first) << ", length: " << graph_.length(split_edges.first));
             TRACE("New edge2: " << graph_.int_id(split_edges.second) << ", length: " << graph_.length(split_edges.second));
             edge1 = split_edges.first;
--- spades.orig/src/projects/dipspades/polymorphic_bulge_remover/bulge_gluer.hpp
+++ spades/src/projects/dipspades/polymorphic_bulge_remover/bulge_gluer.hpp
@@ -74,7 +74,7 @@
         auto splitted_bulge = splitter_.SplitBulge(directed_bulge, glue_def_res);
 
         if(IsSplittedBulgeCorrect(splitted_bulge)){
-            TRACE("Splitted bulge correct");
+            TRACE("Split bulge correct");
             GlueSplittedBulge(splitted_bulge);
             return true;
         }
--- spades.orig/src/projects/dipspades/polymorphic_bulge_remover/bulge_splitter.hpp
+++ spades/src/projects/dipspades/polymorphic_bulge_remover/bulge_splitter.hpp
@@ -260,7 +260,7 @@
         SplitOppositeEdge(split_res, split_paths.second, split_partlens.second);
 
         // update non splitted path
-        TRACE("Update non splitted path");
+        TRACE("Update non split path");
         if(num_splits.second != 0){
             size_t edge_ind = vertices_to_split_[indexes.first].edge_ind_ + 1;
             split_paths.first.push_back(default_paths.first[edge_ind]);
@@ -298,7 +298,7 @@
 
         set<size_t> processed_indices;
         while(num_done_splits < num_splits_.first + num_splits_.second){
-            TRACE("Splitted index - " << split_index << " , owner - " <<
+            TRACE("Split index - " << split_index << " , owner - " <<
                     vertices_to_split_[split_index].owner_path_);
 
             size_t opposite_index = IndexFirstOppositeEdge(split_index, processed_indices);
@@ -418,8 +418,8 @@
         if(!PerformSplitting(range1, range2))
             return SplitResult(graph_);
 
-        TRACE("Splitted spath1 - " << SimplePathWithVerticesToString(graph_, split_paths_.first));
-        TRACE("Splitted spath2 - " << SimplePathWithVerticesToString(graph_, split_paths_.second));
+        TRACE("Split spath1 - " << SimplePathWithVerticesToString(graph_, split_paths_.first));
+        TRACE("Split spath2 - " << SimplePathWithVerticesToString(graph_, split_paths_.second));
         return SplitResult(graph_, split_paths_.first, split_paths_.second);
     }
 
@@ -445,7 +445,7 @@
             auto split_res = spaths_splitter.SplitSubpaths(
                     subpath_range(0, bulge->path1().size() - 1),
                     subpath_range(0, bulge->path2().size() - 1));
-            TRACE("bulge was splitted");
+            TRACE("bulge was split");
             TRACE("1st new bulge side - " << SimplePathWithVerticesToString(graph_, split_res.path1()));
             TRACE("2nd new bulge side - " << SimplePathWithVerticesToString(graph_, split_res.path2()));
             return shared_ptr<BaseBulge>(new Bulge(graph_, graph_.k(), split_res.path1(), split_res.path2()));
--- spades.orig/src/common/modules/alignment/pacbio/pac_index.hpp
+++ spades/src/common/modules/alignment/pacbio/pac_index.hpp
@@ -376,7 +376,7 @@
             auto next_iter = iter + 1;
             if (next_iter == cur_cluster.end() || !IsConsistent(**iter, **next_iter)) {
                 if (next_iter != cur_cluster.end()) {
-                    DEBUG("clusters splitted:");
+                    DEBUG("clusters split:");
                     DEBUG("on "<< (*iter)->str(g_));
                     DEBUG("and " << (*next_iter)->str(g_));
                 }
--- spades.orig/src/projects/hammer/hamcluster.cpp
+++ spades/src/projects/hammer/hamcluster.cpp
@@ -173,7 +173,7 @@
 
   size_t big_blocks2 = 0;
   {
-    INFO("Spliting sub-kmers, pass 2.");
+    INFO("Splitting sub-kmers, pass 2.");
     SubKMerSplitter Splitter(bfname, kfname);
     size_t nblocks = 0;
     std::pair<size_t, size_t> stat =
