PretextView 1.0.3

[guanshaoheng]

Name the Sort and Cut functions as Pixel Sort and Pixel Cut.

Main changes:

• changed to use key F to toggle select sort area mode.
• added Pixel Cut function, which can be used in global mode (by left clicking button in main menu) or select sort area mode.
  • the pixel discontinuity is calculated and pushed to extensions automatically while loading the .pretext file
  • the Pixel Cut is implemented by adding 4096(max number of contigs) to the original_contig_id.
  • sensitivity can be adjusted by setting the cut threshold in the Pixel Cut setting window, which can be opened by right click the Pixel Cut button in main menu.
  • add up/down arrow key under select sort area mode to increase / decrease the cut threshold.
• modified the local sort function:
  • fixed the two ends while sorting locally
  • add left/right arrow key under select sort area mode to switch the sorting algorithom.
• added Select Active Tag in the main menu to select the active meta tag to label the fragments.
• added Grey Out Tags to select the tags to be coved with grey mask.
• fixed bug of copying high resolution contact matrix buffer to cpu: used to make the sort and cut function doesn't work withi high resolution samples.
• optimized the link score calculation:
  • modifying the weight vector from linear to non-linear;
  • add extra 5 pixels length to the weight vector to make the link scores lower for fragments with short length. The shorter the weight is relatively lower.
• added color blind color map.
• added the color settings for selected area in user profile.
• move invert mouse setting to user profile.