imagemagick - find coordinates of outline of transparent png (not border) - imagemagick

While it's easily done to visually outline, is it possible to have imagemagick output the coordinates of the outline of a transparent image?
Note, by outline, I don't mean just the bounding box border, but the actual contour around an arbitrarily shaped transparent image geometry.


Let's say you start with this image, which has a transparent background:
You can extract the transparency and find the edges like this:
convert penguin.png -alpha extract -edge 1 -threshold 50% edges.png
If, rather than an image, you want a list of the coordinates of the contour (i.e. the white pixels), you could do this instead:
convert penguin.png -alpha extract -edge 1 -threshold 50% -depth 8 txt: | awk -F: '/white/{print $1}'
256,0
253,1
254,1
255,1
257,1
258,1
259,1
253,2
259,2
252,3
253,3
...
...
Replace awk and everything after it with more to see what the awk is actually doing - it is just printing the coordinates of every pixel that is white.
The above pixels come out in row order, not like a contour where adjacent pixels come out together. If you want that, you might prefer to generate an SVG of the transparency with potrace like this:
convert penguin.png -alpha extract -threshold 50% pgm:- | potrace - --svg < alpha.pgm > result.svg
Output
<?xml version="1.0" standalone="no"?>
<!DOCTYPE svg PUBLIC "-//W3C//DTD SVG 20010904//EN"
"http://www.w3.org/TR/2001/REC-SVG-20010904/DTD/svg10.dtd">
<svg version="1.0" xmlns="http://www.w3.org/2000/svg"
width="500.000000pt" height="577.000000pt" viewBox="0 0 500.000000 577.000000"
preserveAspectRatio="xMidYMid meet">
<metadata>
Created by potrace 1.13, written by Peter Selinger 2001-2015
</metadata>
<g transform="translate(0.000000,577.000000) scale(0.100000,-0.100000)"
fill="#000000" stroke="none">
<path d="M0 3294 l0 -2476 25 16 c31 20 104 21 152 1 20 -8 38 -14 40 -12 2 2
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185 -83 86 -119 154 -153 286 -31 124 -38 237 -18 307 13 49 15 49 91 -15 177
-151 388 -309 477 -357 42 -23 108 -60 146 -81 76 -43 194 -83 228 -78 19 3
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<path d="M2613 5669 c17 -82 18 -107 9 -133 -7 -18 -12 -47 -12 -64 0 -18 -14
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100 -63 100 -80 0 -19 -36 -30 -116 -36 -43 -3 -103 -8 -133 -11 l-54 -6 82
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-12 3 -7 6 566 6 1275 l1 1287 -1204 0 -1203 0 20 -101z"/>
<path d="M4971 3138 c-20 -33 -89 -96 -165 -153 -23 -17 -103 -92 -179 -168
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<path d="M0 358 l0 -358 458 1 c393 1 450 2 407 14 -146 37 -255 105 -435 270
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</svg>


Assuming you have a transparent "input.png", first convert all nontransparent pixels to white, then use the "-edge" option to find the transitions between transparent and white:
convert input.png -negate -threshold 1 -edge 1 edge.png
Note that this will not only outline the image but will outline any "holes" in it as well. For example, try it with the built-in "logo:" image:
convert logo: -transparent white logotrans.png
convert logotrans.png -negate -threshold 1 -edge 1 t.png
which transforms this
to this

Related

SVG stroke gradient causes horizontal lines to display on iOS Safari

Adding a radial gradient to my SVG path seems to cause weird horizontal (anti-aliasing?) lines on some iOS devices or when you zoom in/out on an iOS device. I wasn't able to replicate it anywhere else.
Here's the (isolated) code:
<svg class="componentClass__chart-svg" width="335" height="318" viewBox="0 0 335 320" xmlns="http://www.w3.org/2000/svg">
<defs>
<radialGradient id="axesGradient" cx="50%" cy="0%" fx="50%" fy="0%" r="50%">
<stop stop-color="#FFFFFF" offset="10%"></stop>
<stop stop-color="#FFFFFF" offset="100%" stop-opacity="0.2"></stop>
</radialGradient>
</defs>
<path class="componentClass__axes" stroke-width="2" stroke="url(#axesGradient)" fill="none" d="M151 12 Q167 0 183 12 L319 108 Q335 120 329 139 L276 299 Q270 318 250 318 L85 318 Q65 318 59 299 L6 139 Q0 120 16 108 Z
M151 37 Q167 25 183 37 L293 116 Q309 128 303 147 L260 275 Q254 294 234 294 L101 294 Q81 294 75 275 L32 147 Q26 128 42 116 Z
M151 62 Q167 50 183 62 L267 124 Q283 136 277 155 L244 251 Q238 270 218 270 L117 270 Q97 270 91 251 L58 155 Q52 136 68 124 Z
M151 87 Q167 75 183 87 L241 132 Q257 144 251 163 L228 227 Q222 246 202 246 L133 246 Q113 246 107 227 L84 163 Q78 144 94 132 Z
M152 113 Q167 100 183 113 L215 139 Q231 152 224 171 L213 203 Q206 222 186 222 L149 222 Q129 222 122 203 L111 171 Q104 152 119 139 Z
" />
</svg>
And the issue:
SVG showing horizontal line
Note this doesn't happen on every iPhone or iPad, but you're usually able to replicate it when you try zooming in and out.
I was able to nail down the issue to this particular use case: as soon as you add the gradient to the stroke, it starts happening. If you change stroke="url(#axesGradient) to just stroke="#FFF", it doesn't seem to happen.
Is there any way I can optimize the SVG to prevent rendering issues?
Here's a Codepen with the exact code above.

Had the same problem, but in my case these lines appeared in any browser on IOS 16, updating to IOS 16.3 fixed it

How to overcome with this error when using Networkx's kernighan_lin_bisection

I want to use kernighan_lin_bisection from Networkx to separate a network data.
But the error below showed up and I'm stuck.
It would be highly appreciated if you could help me overcome this error.
QT-------------------------------------------------------------------------
IndexError Traceback (most recent call last)
in ()
17 for c in init_partition:
18 for n in c:
---> 19 color_map_i[n]=colors[counter]
20 counter=counter+1
21
IndexError: list assignment index out of range
UNQT---------------------------------------------------------------------------
The coding I used and data source"200224_04_act.prn" are below.
QT---------------------------------------------------
G=nx.read_edgelist("200224_04_act.prn",nodetype=int)
colors=["red","blue","green"]
pos=nx.spring_layout(G)
init_nodes=np.array_split(G.nodes(),2)
init_partition=[set(init_nodes[0]),set(init_nodes[1])]
print(init_partition)
from networkx.algorithms.community import kernighan_lin_bisection
color_map_i=["black"]*nx.number_of_nodes(G)
print(color_map_i)
counter=0
for c in init_partition:
for n in c:
color_map_i[n]=colors[counter]
counter=counter+1
print(color_map_i)
nx.draw_networkx_edges(G,pos)
nx.draw_networkx_nodes(G,pos,node_color=color_map_i)
nx.draw_networkx_labels(G,pos)
plt.axis("off")
plt.show()
lst_b=kernighan_lin_bisection(G,partition=init_partition)
color_map_b=["black"]*nx.number_of_nodes(G)
counter=0
for c in lst_b:
for n in c:
color_map_b[n]=colors[counter]
counter=counter+1
nx.draw_networkx_edges(G,pos)
nx.draw_networkx_nodes(G,pos,node_color=color_map_b)
nx.draw_networkx_labels(G,pos)
plt.axis("off")
plt.show()
UNQT--------------------------------------------------------------
"200224_04_act.prn" below.(Number of nodes is around 2000 but I made it
small due to the limit of number of character)
1 415
2 415
3 415
3 1350
4 1351
5 1352
6 383
7 993
8 1353
9 887
10 887
11 887
12 887
13 887
14 1185
15 1185
16 1185
17 1185
18 1185
19 1146
20 1146
21 1146
22 1146
21 776
23 776
24 707
25 707
26 707
27 707
28 707
29 754
21 754
30 754
31 754
32 754
33 778
34 778
35 778
36 778
37 778
38 859
39 859
40 1354
41 563
42 563
43 563
44 563
45 563
46 1209
47 1209
48 1209
49 1209
50 1209
51 715
52 715
53 715
54 715
55 715
56 1048
57 1048
58 1047
59 1047
60 1047
61 1047
62 1047
63 718
64 718
65 718
66 718
67 718
68 947
17 947
69 947
70 889
71 744
72 744
73 744
74 744
75 744
76 1137
77 1137
78 1137
79 1137
80 612
81 612
82 612
83 612
17 612
84 790
85 790
86 790
87 790
88 790
89 922
90 922
91 922
92 922
93 922
21 738
94 738
95 738
96 738
97 738
98 1355
81 807
99 807
17 807
100 725
101 725
17 725
102 725
103 725
23 1046
104 661
105 661
106 661
107 661
108 661
109 907
110 907
111 907
112 907
113 907
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115 840
116 840
117 840
17 840
118 759
23 759
119 759
23 761
120 761
121 761
122 761
123 1356
124 1265
125 1265
126 1265
127 1265
128 1265
129 894
29 894
130 894
131 894
132 667
133 667
124 758
134 758
135 758
122 758
136 758
137 471
138 471

You've got
for c in init_partition:
for n in c:
color_map_i[n]=colors[counter]
counter=counter+1
It looks to me like n will loop over all of the nodes of the graph. I do not see any entries in the graph that are 0. So probably the nodes are numbered 1 to N, while color_map_i is indexed from 0 to N-1. So it would break when n=N.
A good way to hunt for bugs like this in general would be to print n right before the line giving the error. This would give a hint to what the problem is.

Generated DXF file opens in AutoCAD but crashes BricsCAD

I am working on a DXF (AC1021 version) exporter in Delphi and I ran into some problems. I was looking closely at ezdxf for minimum file structure and I was able to successfully generate it in delphi.
Now the problem I have is that the generated file works OK in AutoCAD but chrashes BricsCAD as soon as I try to click on entity from block.
Below I am sending you my generated file. Maybe somebody knows an analyzing tool are maybe has an idea what is wrong with my dxf exporter.Thanks for all the hints!
999
TFPDxfWriteBridge by wingdesigner
0
SECTION
2
HEADER
9
$ACADVER
1
AC1021
9
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5
20000
0
ENDSEC
0
SECTION
2
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0
ENDSEC
0
SECTION
2
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0
TABLE
2
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5
A
330
0
100
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0
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5
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330
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70
0
10
0
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0
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1
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1
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13
0
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0
14
10
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1
25
1
16
0
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0
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1
17
0
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0
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2
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0
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0
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7
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1
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AcDbEntity
8
0
100
AcDbBlockReference
2
TEST_BLOCK
10
0.00
20
0.00
30
0.0
0
ENDSEC
0
SECTION
2
OBJECTS
0
DICTIONARY
5
2F
330
0
100
AcDbDictionary
281
1
3
ACAD_GROUP
350
D
0
DICTIONARY
5
30
330
2F
100
AcDbDictionary
281
1
0
ENDSEC
0
EOF
EDIT
As it turnes out, BricsCAD has a nice recover tool. Acoording to that tool Hard POinter/ID Handle of PlotStyleName Object (390) is wrong.
Name: AcDbLayerTableRecord(17); Value: PlotStyleName Id (F); Validation: Invalid; Replaced by: Set to Null.
This narrows the possibilites a lot, but doesn't quite solve the problem, as I am not really sure what PlotStyleName object is in my case.

I found out that BricsCAD can use internal _RECOVER function to analyze the input file and warn the user of possible errors.
As it turns out, self pointers of layers (390) were not correctly defined. Setting 390 to 0 instead of F, is not the cleanest and the most correct way to solve the problem but it does the job.

I don't know about BricsCAD but It could be some of the AutoCAD-friendly dxf codes that are not supported by BricsCAD.
Try this dxf file to see if it generates the same error in BricsCAD
It contains one block only (Zoom-Extends to find it).
If it works we can figure-out what made your file crash.
0
SECTION
2
HEADER
9
$ACADVER
1
AC1009
9
$INSBASE
10
0.0
20
0.0
30
0.0
9
$REGENMODE
70
1
9
$FILLMODE
70
1
9
$QTEXTMODE
70
0
9
$MIRRTEXT
70
0
9
$DRAGMODE
70
2
9
$LTSCALE
40
1.0
9
$OSMODE
70
2215
9
$ATTMODE
70
1
9
$TEXTSIZE
40
0.15
9
$TRACEWID
40
1.0
9
$TEXTSTYLE
7
STANDARD
9
$CLAYER
8
DEFPOINTS
9
$CELTYPE
6
BYLAYER
9
$CECOLOR
62
256
9
$DIMSCALE
40
1.0
9
$DIMASZ
40
0.1
9
$DIMEXO
40
0.25
9
$DIMDLI
40
0.25
9
$DIMRND
40
0.0
9
$DIMDLE
40
0.0
9
$DIMEXE
40
0.1
9
$DIMTP
40
0.0
9
$DIMTM
40
0.0
9
$DIMTXT
40
0.15
9
$DIMCEN
40
0.1
9
$DIMTSZ
40
0.0
9
$DIMTOL
70
0
9
$DIMLIM
70
0
9
$DIMTIH
70
0
9
$DIMTOH
70
1
9
$DIMSE1
70
0
9
$DIMSE2
70
0
9
$DIMTAD
70
1
9
$DIMZIN
70
8
9
$DIMBLK
1
9
$DIMASO
70
1
9
$DIMSHO
70
1
9
$DIMPOST
1
9
$DIMAPOST
1
9
$DIMALT
70
0
9
$DIMALTD
70
3
9
$DIMALTF
40
0.03937007874016
9
$DIMLFAC
40
1.0
9
$DIMTOFL
70
1
9
$DIMTVP
40
0.0
9
$DIMTIX
70
0
9
$DIMSOXD
70
0
9
$DIMSAH
70
0
9
$DIMBLK1
1
9
$DIMBLK2
1
9
$DIMSTYLE
2
ISO-25
9
$DIMCLRD
70
2
9
$DIMCLRE
70
0
9
$DIMCLRT
70
7
9
$DIMTFAC
40
1.0
9
$DIMGAP
40
0.15
9
$LUNITS
70
2
9
$LUPREC
70
3
9
$SKETCHINC
40
1.0
9
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40
0.0
9
$AUNITS
70
1
9
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70
3
9
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1
.
9
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40
0.0
9
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40
0.0
9
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40
0.0
9
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70
0
9
$BLIPMODE
70
0
9
$CHAMFERA
40
0.0
9
$CHAMFERB
40
0.0
9
$SKPOLY
70
0
9
$TDCREATE
40
2455559.7215111339
9
$TDUPDATE
40
2455601.6499361689
9
$TDINDWG
40
0.0182150694
9
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40
0.0182009375
9
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70
1
9
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50
0.0
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70
0
9
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70
0
9
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40
0.0
9
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40
0.0
9
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70
1
9
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70
0
9
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70
6
9
$SPLINESEGS
70
8
9
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70
0
9
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70
1
9
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70
1
9
$HANDSEED
5
100006
9
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70
6
9
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70
6
9
$SURFTYPE
70
6
9
$SURFU
70
6
9
$SURFV
70
6
9
$UCSNAME
2
9
$UCSORG
10
0.0
20
0.0
30
0.0
9
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10
1.0
20
0.0
30
0.0
9
$UCSYDIR
10
0.0
20
1.0
30
0.0
9
$PUCSNAME
2
9
$PUCSORG
10
0.0
20
0.0
30
0.0
9
$PUCSXDIR
10
1.0
20
0.0
30
0.0
9
$PUCSYDIR
10
0.0
20
1.0
30
0.0
9
$USERI1
70
0
9
$USERI2
70
0
9
$USERI3
70
0
9
$USERI4
70
0
9
$USERI5
70
0
9
$USERR1
40
0.0
9
$USERR2
40
0.0
9
$USERR3
40
0.0
9
$USERR4
40
0.0
9
$USERR5
40
0.0
9
$WORLDVIEW
70
1
9
$SHADEDGE
70
3
9
$SHADEDIF
70
70
9
$TILEMODE
70
1
9
$MAXACTVP
70
64
9
$PLIMCHECK
70
0
9
$PEXTMIN
10
1.0000000000000000E+020
20
1.0000000000000000E+020
30
1.0000000000000000E+020
9
$PEXTMAX
10
-1.0000000000000000E+020
20
-1.0000000000000000E+020
30
-1.0000000000000000E+020
9
$PLIMMIN
10
0.0
20
0.0
9
$PLIMMAX
10
420.0
20
297.0
9
$UNITMODE
70
0
9
$VISRETAIN
70
1
9
$PLINEGEN
70
0
9
$PSLTSCALE
70
1
0
ENDSEC
0
SECTION
2
TABLES
0
TABLE
2
VPORT
70
1
0
ENDTAB
0
TABLE
2
LTYPE
70
3
0
LTYPE
2
CONTINUOUS
70
0
3
Solidline
72
65
73
0
40
0.0
0
LTYPE
2
ACAD_ISO04W100
70
0
3
ISOlong-dashdot____.____.____.____._
72
65
73
4
40
2.0
49
1.399999999999999
49
-0.3
49
0.0
49
-0.3
0
LTYPE
2
ACAD_ISO02W100
70
0
3
ISOdash__________________________
72
65
73
2
40
15.0
49
12.0
49
-3.0
0
ENDTAB
0
TABLE
2
LAYER
70
16
0
LAYER
2
0
70
0
62
7
6
CONTINUOUS
0
LAYER
2
DEFPOINTS
70
0
62
7
6
CONTINUOUS
0
LAYER
2
PIPE
70
0
62
6
6
CONTINUOUS
0
LAYER
2
GRID
70
0
62
8
6
CONTINUOUS
0
LAYER
2
GROUND
70
0
62
3
6
CONTINUOUS
0
LAYER
2
POINTID
70
0
62
1
6
CONTINUOUS
0
LAYER
2
ELEVATION
70
0
62
1
6
CONTINUOUS
0
LAYER
2
POINTS
70
0
62
6
6
CONTINUOUS
0
LAYER
2
X-Y-CORDS
70
0
62
6
6
CONTINUOUS
0
LAYER
2
NOTES
70
0
62
4
6
CONTINUOUS
0
LAYER
2
LATERAL
70
0
62
4
6
CONTINUOUS
0
LAYER
2
LATERALG
70
0
62
3
6
CONTINUOUS
0
LAYER
2
3DPOLY
70
0
62
5
6
CONTINUOUS
0
LAYER
2
HATCH
70
0
62
9
6
CONTINUOUS
0
LAYER
2
TEXT
70
0
62
7
6
CONTINUOUS
0
LAYER
2
DIMENSIONS
70
0
62
5
6
CONTINUOUS
0
LAYER
2
TABLES
70
0
62
7
6
CONTINUOUS
0
LAYER
2
MANHOLE
70
0
62
1
6
CONTINUOUS
0
LAYER
2
HIDDEN
70
0
62
7
6
ACAD_ISO02W100
0
LAYER
2
GV
70
0
62
5
6
CONTINUOUS
0
LAYER
2
FH
70
0
62
1
6
CONTINUOUS
0
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2
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70
0
62
5
6
CONTINUOUS
0
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2
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70
0
62
6
6
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2
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70
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62
1
6
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2
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70
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62
5
6
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2
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70
0
62
1
6
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2
Y
70
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62
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6
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0
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0
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2
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70
4
0
STYLE
2
STANDARD
70
0
40
0.15
41
1.0
50
0.0
71
0
42
0.15
3
txt.shx
4
0
STYLE
2
ANNOTATIVE
70
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0
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0.2
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txt
4
0
STYLE
2
LOCAL
70
0
40
0.15
41
1.0
50
0.0
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0
42
0.15
3
x-arab.shx
4
0
STYLE
2
70
1
40
0.0
41
1.0
50
0.0
71
0
42
2.5
3
ltypeshp.shx
4
0
ENDTAB
0
TABLE
2
VIEW
70
0
0
ENDTAB
0
TABLE
2
UCS
70
0
0
ENDTAB
0
TABLE
2
APPID
70
12
0
APPID
2
ACAD
70
0
0
APPID
2
ACADANNOTATIVE
70
0
0
APPID
2
ACAECLAYERSTANDARD
70
0
0
APPID
2
ACCMTRANSPARENCY
70
0
0
APPID
2
ACAD_EXEMPT_FROM_CAD_STANDARDS
70
0
0
APPID
2
ACAD_DSTYLE_DIMJAG
70
0
0
APPID
2
ACAD_DSTYLE_DIMBREAK
70
0
0
APPID
2
ACAD_DSTYLE_DIMTALN
70
0
0
APPID
2
ACADANNOPO
70
0
0
APPID
2
ACAD_DSTYLE_DIMJOGGED_JOGA
70
0
0
APPID
2
ACAD_DSTYLE_DIMTEXT_FILL
70
0
0
APPID
2
ACAD_MLEADERVER
70
0
0
ENDTAB
0
TABLE
2
DIMSTYLE
70
3
0
DIMSTYLE
2
STANDARD
70
0
3
4
5
6
7
40
1.0
41
0.18
42
0.0625
43
0.38
44
0.18
45
0.0
46
0.0
47
0.0
48
0.0
140
0.18
141
0.09
142
0.0
143
25.399999999999999
144
1.0
145
0.0
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1.0
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0.09
71
0
72
0
73
1
74
1
75
0
76
0
77
0
78
0
170
0
171
2
172
0
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0
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0
175
0
176
0
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0
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0
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2
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70
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4
5
6
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40
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0.0
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0.18
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0.09
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0.0
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25.399999999999999
144
1.0
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0.0
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1.0
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0.09
71
0
72
0
73
1
74
1
75
0
76
0
77
0
78
0
170
0
171
2
172
0
173
0
174
0
175
0
176
0
177
0
178
0
0
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2
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70
0
3
4
5
6
7
40
1.0
41
0.1
42
0.25
43
0.25
44
0.1
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0.0
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0.0
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0.0
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0.0
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0.0
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0.03937007874016
144
1.0
145
0.0
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1.0
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0.15
71
0
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0
73
0
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1
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0
76
0
77
1
78
8
170
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0
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0
176
2
177
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178
7
0
ENDTAB
0
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0
SECTION
2
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0
BLOCK
8
POINTS
2
Block0
70
0
10
0
20
0
30
0
3
Block0
1
0
SOLID
5
100004
8
POINTS
10
678218.2191
20
2717042.676
30
0
11
678220.4691
21
2717042.676
31
0
12
678218.2191
22
2717040.426
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0
13
678220.4691
23
2717040.426
33
0
39
1
210
0
220
0
230
1
0
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5
100005
8
POINTS
10
678221.5941
20
2717043.801
30
0
11
678221.5941
21
2717043.801
31
0
72
0
73
1
40
2.25
1
point
50
0
7
STANDARD
0
ENDBLK
5
100002
8
POINTS
0
BLOCK
8
0
2
$MODEL_SPACE
70
0
10
0.0
20
0.0
30
0.0
3
$MODEL_SPACE
1
0
ENDBLK
5
10
8
0
0
BLOCK
67
1
8
0
2
$PAPER_SPACE
70
0
10
0.0
20
0.0
30
0.0
3
$PAPER_SPACE
1
0
ENDBLK
5
11
67
1
8
0
0
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0
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2
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0
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5
100003
8
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10
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20
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30
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0
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5
100001
8
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2
Block0
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0
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0
EOF

parsing using awk

how to parse a file based on data from another file using awk.
i made a script:
BEGIN{ FS="\t" ; OFS="\t"
while((getline<"headfpkm")>0) {
++a
id[a]=$1
fpkm[a]=$2
print id[a],fpkm[a]
}
lastid=id[a]
print lastid
close("headfpkm")
}
/$lastid/{
print $2,$3,$5,$7,$8,$14,fpkm[a]
a--
lastid=id[a]
}
END{ print "total lines=",FNR,"\n\nfile 1 index: ",a}
when i run it :
/$ awk -f testawk.awk file2
it runs the BEGIN section properly but doesnt give any output.
NM_000014 5.04503
NM_000015 0.586677
NM_000016 1.138332278
NM_000017 0.64386
NM_000018 3.61746
NM_000019 2.8793
NM_000020 10.846
NM_000021 0.685098
NM_000022 46388.6
NM_000026 0.257471
NM_000026
total lines= 10
file 1 index: 10
Is anything wrong with the searching section??
file 2 looks like this:
34 ACADM NM_000016 9606 hsa-miR-3148 3 80 87 0.003 -0.016 -0.094 0.082 0.112 -0.160 97
34 ACADM NM_000016 9606 hsa-miR-3163 1 623 629 0.001 -0.022 -0.020 0.065 0.125 -0.01 57
35 ACADS NM_000017 9606 hsa-miR-3921 3 68 75 0.013 0.192 -0.097 0.031 -0.039 -0.147 82
35 ACADS NM_000017 9606 hsa-miR-4303 2 67 73 0.012 0.150 -0.052 0.013 -0.039 -0.036 31
35 ACADS NM_000017 9606 hsa-miR-4653-5p 3 68 75 0.003 0.192 -0.097 0.031 -0.039 -0.157 84
37 ACADVL NM_000018 9606 hsa-miR-124 2 31 37 0.003 0.023 -0.057 0.012 -0.032 -0.171 76
37 ACADVL NM_000018 9606 hsa-miR-1827 2 135 141 -0.007 -0.043 -0.058 0.039 -0.069 -0.258 91
37 ACADVL NM_000018 9606 hsa-miR-2682 2 134 140 0.003 -0.014 -0.058 0.004 -0.047 -0.232 87
37 ACADVL NM_000018 9606 hsa-miR-449c 2 134 140 -0.035 -0.014 -0.058 0.004 -0.047 -0.270 92
37 ACADVL NM_000018 9606 hsa-miR-506 2 31 37 -0.016 0.023 -0.057 0.012 -0.032 -0.190 80

This is going to be a bit of guess, because I'm not 100% sure as to what you're trying to accomplish. The better way to solve your problem, would be to do something like this:
BEGIN {
FS=OFS="\t"
}
FNR==NR {
c++
a[$1]=$2
next
}
$3 in a {
print $2,$3,$5,$7,$8,$14,a[$3]
}
END {
printf "total lines=%s\n\nfile 1 index: %s\n", FNR, c
}
Run like:
awk -f script.awk headfpkm file2
Results:
ACADM NM_000016 hsa-miR-3148 80 87 -0.160 1.138332278
ACADM NM_000016 hsa-miR-3163 623 629 -0.01 1.138332278
ACADS NM_000017 hsa-miR-3921 68 75 -0.147 0.64386
ACADS NM_000017 hsa-miR-4303 67 73 -0.036 0.64386
ACADS NM_000017 hsa-miR-4653-5p 68 75 -0.157 0.64386
ACADVL NM_000018 hsa-miR-124 31 37 -0.171 3.61746
ACADVL NM_000018 hsa-miR-1827 135 141 -0.258 3.61746
ACADVL NM_000018 hsa-miR-2682 134 140 -0.232 3.61746
ACADVL NM_000018 hsa-miR-449c 134 140 -0.270 3.61746
ACADVL NM_000018 hsa-miR-506 31 37 -0.190 3.61746
total lines=10
file 1 index: 10

Convert PNG images to pixel gray-level values feature vectors

I am a newbie in MATLAB and I have a set of bmp images which I need to convert into pixel gray-level values as feature vectors of image. Can anyone suggest me the way how I can do that?
I need to use these pixel gray-level values as features and then perform operations like PCA/LDA.
I tried imread() but it returns me a matrix.. I feel feature vector will be just one row vector.
Regards,

imread() is the correct way to do it. Then just convert from a matrix into a vector. For example:
>> X = randi(255, 10)
X =
208 41 168 181 112 71 192 215 90 20
231 248 10 9 98 174 66 65 212 14
33 245 217 71 196 168 130 208 150 136
233 124 239 12 203 42 179 63 141 199
162 205 174 25 48 31 228 237 234 239
25 37 194 210 125 128 245 90 73 34
72 108 190 178 114 245 140 51 194 146
140 234 101 81 165 87 36 65 193 120
245 203 168 243 181 150 39 158 98 4
247 245 44 9 193 58 66 121 145 86
>> X(:)
ans =
208
231
33
233
162
25
72
140
245
247
...
Then you can just stack your different observations together with [] and do PCA.

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