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BioinformaticDataCompression
QcmpCompressionLibrary
Commits
3a547be1
Commit
3a547be1
authored
5 years ago
by
Vojtech Moravec
Browse files
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Report decompression speed in verbose mode.
parent
a103e1eb
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2 changed files
src/main/java/azgracompress/compression/ImageDecompressor.java
+13
-5
13 additions, 5 deletions
...ain/java/azgracompress/compression/ImageDecompressor.java
src/main/java/azgracompress/utilities/Stopwatch.java
+2
-2
2 additions, 2 deletions
src/main/java/azgracompress/utilities/Stopwatch.java
with
15 additions
and
7 deletions
src/main/java/azgracompress/compression/ImageDecompressor.java
+
13
−
5
View file @
3a547be1
...
...
@@ -3,6 +3,7 @@ package azgracompress.compression;
import
azgracompress.cli.ParsedCliOptions
;
import
azgracompress.compression.exception.ImageDecompressionException
;
import
azgracompress.fileformat.QCMPFileHeader
;
import
azgracompress.utilities.Stopwatch
;
import
java.io.*
;
...
...
@@ -101,7 +102,7 @@ public class ImageDecompressor extends CompressorDecompressorBase {
logBuilder
.
append
(
"Codebook:\t\t"
).
append
(
header
.
isCodebookPerPlane
()
?
"one per plane\n"
:
"one for "
+
"all\n"
);
final
int
codebookSize
=
(
int
)
Math
.
pow
(
2
,
header
.
getBitsPerPixel
());
final
int
codebookSize
=
(
int
)
Math
.
pow
(
2
,
header
.
getBitsPerPixel
());
logBuilder
.
append
(
"Codebook size:\t\t"
).
append
(
codebookSize
).
append
(
'\n'
);
logBuilder
.
append
(
"Image size X:\t\t"
).
append
(
header
.
getImageSizeX
()).
append
(
'\n'
);
...
...
@@ -126,9 +127,9 @@ public class ImageDecompressor extends CompressorDecompressorBase {
((
fileSize
/
1000
)
/
1000
)));
logBuilder
.
append
(
"Data size:\t\t"
).
append
(
dataSize
).
append
(
" Bytes "
).
append
(
dataSize
==
expectedDataSize
?
"(correct)\n"
:
"(INVALID)\n"
);
final
long
uncompressedSize
=
header
.
getImageDims
().
multiplyTogether
()
*
2
;
final
double
compressionRatio
=
(
double
)
fileSize
/
(
double
)
uncompressedSize
;
logBuilder
.
append
(
String
.
format
(
"Compression ratio:\t%.5f\n"
,
compressionRatio
));
final
long
uncompressedSize
=
header
.
getImageDims
().
multiplyTogether
()
*
2
;
final
double
compressionRatio
=
(
double
)
fileSize
/
(
double
)
uncompressedSize
;
logBuilder
.
append
(
String
.
format
(
"Compression ratio:\t%.5f\n"
,
compressionRatio
));
}
}
...
...
@@ -138,11 +139,12 @@ public class ImageDecompressor extends CompressorDecompressorBase {
public
boolean
decompress
()
{
final
Stopwatch
decompressionStopwatch
=
Stopwatch
.
startNew
();
final
long
decompressedFileSize
;
try
(
FileInputStream
fileInputStream
=
new
FileInputStream
(
options
.
getInputFile
());
DataInputStream
dataInputStream
=
new
DataInputStream
(
fileInputStream
))
{
final
QCMPFileHeader
header
=
readQCMPFileHeader
(
dataInputStream
);
if
(
header
==
null
)
{
System
.
err
.
println
(
"Failed to read QCMPFile header"
);
return
false
;
...
...
@@ -151,6 +153,7 @@ public class ImageDecompressor extends CompressorDecompressorBase {
System
.
err
.
println
(
"QCMPFile header is invalid"
);
return
false
;
}
decompressedFileSize
=
header
.
getImageDims
().
multiplyTogether
();
IImageDecompressor
imageDecompressor
=
getImageDecompressor
(
header
);
if
(
imageDecompressor
==
null
)
{
...
...
@@ -180,6 +183,11 @@ public class ImageDecompressor extends CompressorDecompressorBase {
ioEx
.
printStackTrace
();
return
false
;
}
decompressionStopwatch
.
stop
();
final
double
seconds
=
decompressionStopwatch
.
totalElapsedSeconds
();
final
double
MBSize
=
((
double
)
decompressedFileSize
/
1000.0
)
/
1000.0
;
final
double
MBPerSec
=
MBSize
/
seconds
;
Log
(
"Decompression speed: %.4f MB/s"
,
MBPerSec
);
return
true
;
}
...
...
This diff is collapsed.
Click to expand it.
src/main/java/azgracompress/utilities/Stopwatch.java
+
2
−
2
View file @
3a547be1
...
...
@@ -53,8 +53,8 @@ public class Stopwatch {
return
elapsed
.
toMillis
();
}
public
long
totalElapsedSeconds
()
{
return
elapsed
.
to
Seconds
(
);
public
double
totalElapsedSeconds
()
{
return
(
elapsed
.
to
Nanos
()
/
1_000_000_000.0
);
}
public
String
getElapsedTimeString
()
{
...
...
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