How to modify the header

 

All programs that process multiple cells (vials, dishes or flies) per image contain a section that looks like this. Each pair of $Xoffset_hash(n) and $Yoffset_hash(n) identify the position of a cell. You only need to determine the position in one cell.

See How to identify the position of cells

#----------------------------

#INSERT_COORDINATES_HERE

$Xoffset_hash{0}=50;$Yoffset_hash{0}=115;

$Xoffset_hash{1}=367;$Yoffset_hash{1}=113;

#how many cells are in photograph?

my $total_number_of_cells=2;

#dimensions of each cell

my $dimensions="315x280";

#Do not move or alter the following line. The program transfer parameters depends on it.

#END_COORDINATES

#----------------------------


For some applications, you may have a very extensive list of coordinates as shown below.

#----------------------------

#INSERT_COORDINATES_HERE


#exp

$Xoffset_hash{0}=389;$Yoffset_hash{0}=236;

$Xoffset_hash{1}=279;$Yoffset_hash{1}=276;

$Xoffset_hash{2}=435;$Yoffset_hash{2}=346;

$Xoffset_hash{3}=191;$Yoffset_hash{3}=367;

$Xoffset_hash{4}=271;$Yoffset_hash{4}=364;

$Xoffset_hash{5}=326;$Yoffset_hash{5}=411;

$Xoffset_hash{6}=212;$Yoffset_hash{6}=438;

$Xoffset_hash{7}=453;$Yoffset_hash{7}=494;

$Xoffset_hash{8}=246;$Yoffset_hash{8}=528;

$Xoffset_hash{9}=315;$Yoffset_hash{9}=577;

$Xoffset_hash{10}=94;$Yoffset_hash{10}=650;


#cntrl

$Xoffset_hash{11}=174;$Yoffset_hash{11}=1024;

$Xoffset_hash{12}=195;$Yoffset_hash{12}=1081;

$Xoffset_hash{13}=340;$Yoffset_hash{13}=1121;

$Xoffset_hash{14}=335;$Yoffset_hash{14}=1171;

$Xoffset_hash{15}=439;$Yoffset_hash{15}=1189;

$Xoffset_hash{16}=320;$Yoffset_hash{16}=1201;

$Xoffset_hash{17}=442;$Yoffset_hash{17}=1243;

$Xoffset_hash{18}=266;$Yoffset_hash{18}=1235;

$Xoffset_hash{19}=176;$Yoffset_hash{19}=1264;

$Xoffset_hash{20}=393;$Yoffset_hash{20}=1302;

$Xoffset_hash{21}=252;$Yoffset_hash{21}=1328;

$Xoffset_hash{22}=305;$Yoffset_hash{22}=1380;

$Xoffset_hash{23}=386;$Yoffset_hash{23}=1370;

$Xoffset_hash{24}=470;$Yoffset_hash{24}=1460;

$Xoffset_hash{25}=322;$Yoffset_hash{25}=1493;


#how many cells are in photograph?

my $total_number_of_cells=10;

#change this variable if you are analyzing only a portion of the cells

my $cell_start=0;

#set this to 0 to skip the initial image modifications (grayscale and depth)

my $process=1;

##dimensions of each cell

my $dimensions="15x15";

#END_COORDINATES

#----------------------------