<div dir="ltr"><div class="gmail_extra"><div class="gmail_quote">On Mon, Jan 29, 2018 at 6:56 PM, Nathan Hughes <span dir="ltr"><<a href="mailto:nathan1hughes@gmail.com" target="_blank">nathan1hughes@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><span style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial;float:none;display:inline">Hello, </span><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial"><br></div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial">At the end of last year, our paper was published (<a href="https://plantmethods.biomedcentral.com/articles/10.1186/s13007-017-0229-8" style="color:rgb(17,85,204)" target="_blank">https://plantmethods.biomedce<wbr>ntral.com/articles/10.1186/<wbr>s13007-017-0229-8</a>) and I used Tomviz for a lot of visual analysis. </div></div></blockquote><div><br></div><div>Great to hear about Tomviz being used in new areas! Thanks for the link, and for citing Tomviz. </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial"><br></div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial">I'm currently in the process of moving a lot of my segmentation methods from MATLAB into Python and I would like to use Tomviz further. However we use a Scanco MicroCT scanner which produces a proprietary ISQ file format.  I have written a file reader for it, both in Python and MATLAB, I could also rewrite it in C/C++ if needed and would like to add it to Tomviz as it would be extremely useful for my Institute to use for a lot of our projects, I also know others in my field who would appreciate this addition too. </div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial"><br></div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial">Would someone be able to advise on how I could go about making this addition to the Tomviz software? Obviously, I can navigate the code, I just want to do this correctly and in a way in which I can feed this back to other users on Github.</div></div></blockquote><div><br></div><div>I don't have a definite timeline, but we are hoping to add the ability to use Python code to read and write data. This may be a good use case, as I have discussed file formats with a number of people it is clear that Tomviz would benefit from a simple method of adding new formats using Python scripts - there are one or two others on my RADAR with existing Python-based readers too. </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial"><br></div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial">Mostly I am unsure of which specific files are needed to be altered in order to accept another file type and how to point to the function to handle it. </div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial"><br></div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial">As you can see here: <a href="https://gist.github.com/SirSharpest/fd0a039547eb4ca5f00b02de1216917f" style="color:rgb(17,85,204)" target="_blank">https://gist.github.com/<wbr>SirSharpest/fd0a039547eb4ca5f0<wbr>0b02de1216917f</a><span> </span>it's a straightforward process (this is just a quick example). </div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial"><br></div><div style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:12.8px;font-style:normal;font-variant-ligatures:normal;font-variant-caps:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;background-color:rgb(255,255,255);text-decoration-style:initial;text-decoration-color:initial">Hope I can get some advise on this. </div></div></blockquote><div><br></div><div>As Cory pointed out the quickest method is to convert to C++, I hope to make this much easier in the next few months at least for cases where you have a simple 3D volumetric dataset.</div><div><br></div><div>Hope that helps, and thanks for getting in touch!</div><div><br></div><div>Best, </div><div><br>Marcus</div></div></div></div>