1. gmapR
  2. src
  3. bytestream.h
Browse code

resurrect improvements that we reverted before the April release, expect breakage for a while

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gmapR@110039 bc3139a8-67e5-0310-9ffc-ced21a209358

Michael Lawrence authored on 28/10/2015 18:51:00
Showing 1 changed files
src/bytestream.h
History View file @ 8418591
... ... 
@@ -18,7 +18,7 @@ read_char (unsigned char **bytes) {
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 static inline const char *
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 read_string (unsigned char **bytes) {
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-  const char *string = *bytes;
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+  const char *string = (char *)*bytes;
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   (*bytes) += strlen(string) + 1;
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   return string;
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 }
Browse code

Reverted to r101133, along with NAMESPACE fixes

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gmapR@102487 bc3139a8-67e5-0310-9ffc-ced21a209358

Michael Lawrence authored on 14/04/2015 21:40:44
Showing 1 changed files
src/bytestream.h
History View file @ d5ed124
... ... 
@@ -18,7 +18,7 @@ read_char (unsigned char **bytes) {
18 18
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 static inline const char *
20 20 
 read_string (unsigned char **bytes) {
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-  const char *string = (char *)*bytes;
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+  const char *string = *bytes;
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   (*bytes) += strlen(string) + 1;
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   return string;
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 }
Browse code

Recent work towards supporting the new features... will revert back to a stable version immediately...

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gmapR@102485 bc3139a8-67e5-0310-9ffc-ced21a209358

Michael Lawrence authored on 14/04/2015 21:32:10
Showing 1 changed files
src/bytestream.h
History View file @ c8fd96e
... ... 
@@ -18,7 +18,7 @@ read_char (unsigned char **bytes) {
18 18
19 19 
 static inline const char *
20 20 
 read_string (unsigned char **bytes) {
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-  const char *string = *bytes;
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+  const char *string = (char *)*bytes;
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   (*bytes) += strlen(string) + 1;
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   return string;
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 }
Browse code

add codon tally support. No vbump yet

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gmapR@93316 bc3139a8-67e5-0310-9ffc-ced21a209358

Gabriel Becker authored on 11/08/2014 23:42:48
Showing 1 changed files
src/bytestream.h
History View file @ c78be69
... ... 
@@ -8,13 +8,14 @@ read_int (unsigned char **bytes) {
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   return x;
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 }
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-static inline char
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+static inline unsigned char
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 read_char (unsigned char **bytes) {
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-  char x = (*bytes)[0];
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+  unsigned char x = (*bytes)[0];
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   (*bytes)++;
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   return x;
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 }
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+
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 static inline const char *
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 read_string (unsigned char **bytes) {
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   const char *string = *bytes;
Browse code

Decoupling the bam tallying from summarization. Soon, we will return an IIT, which can be summarized in various ways. Currently, the only way is the variant summary.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gmapR@69806 bc3139a8-67e5-0310-9ffc-ced21a209358

Michael Lawrence authored on 25/09/2012 16:00:17
Showing 1 changed files
src/bytestream.h
History View file @ 3f89995
1 1 
new file mode 100644
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@@ -0,0 +1,23 @@
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+/* Functions for reading data from byte streams. Inlined because they
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+   are tiny and need to be fast. */
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+
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+static inline int
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+read_int (unsigned char **bytes) {
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+  int x = ((int *)*bytes)[0];
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+  *bytes += sizeof(int);
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+  return x;
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+}
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+
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+static inline char
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+read_char (unsigned char **bytes) {
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+  char x = (*bytes)[0];
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+  (*bytes)++;
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+  return x;
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+}
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+
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+static inline const char *
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+read_string (unsigned char **bytes) {
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+  const char *string = *bytes;
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+  (*bytes) += strlen(string) + 1;
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+  return string;
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+}