moshi4
commented
7 months ago Hi @dnjst,
I did not notice the large SVG file size because I did not check the SVG output results of pyCirclize very often. The problem was caused by too many points to represent a curve with a particular vector object.
In the newly released pyCirclize v1.3.0, the number of points to represent a curve has been reduced to one-tenth, resulting in a smaller output SVG file size. I am not sure if it will be small enough for you, but it will certainly be smaller than before.
Hello! I would like to save pycirclize plots to svg to submit for publication in vector format (required for the journal).
I found that upon saving to svg, the output files are massive and unwieldy in any editor. The .svg is >1 MB.
Opening the .svg file in inkscape, I found that the black borders around the sector are being rendered as hundreds of tiny points, rather than as a continuous curve in the vector.
Is there any way the code can be adjusted so that it can save to vector in a more efficient way? Arrows and links seem to work fine, it is just those border boxes so far as I can tell.
To reproduce, you can use the Example 1. Circos Plot and change the save command to:
circos.savefig("example01.svg")This also occurs in phylogenetic trees, where the lines consist of more nodes than should be necessary (although I am unsure about how vector rendering works):
Thank you so much for this program which renders really compelling images.