Clint

5' Adapter Trimming

4

Can I request 5' adapter/primer trimming (forgive me if I missed it in the docs): e.g. If a primer sequence is AACTGCC: ``` Before: 5'-aatgaAACTGCCactgggagagagccatcattgatcgtagctg-3' After: 5'-actgggagagagccatcattgatcgtagctg-3 ``` This, in...

Different tree topologies when running the same data

8

HI--I wonder if someone can help me think through what is going on. I'm trying a (not-too) custom build where I'm forcing inclusion of several (good) sequences. These should all...

Running with nginx reverse proxy

4

I've been trying to force auspice to run behind an nginx reverse proxy, and I wonder if anyone has had success doing this. This is super easy if I want...

ProjectComparison Path bug

1

in edge_action.cgi (dev), on line 658 (possibly elsewhere), the path generated by ```my $relative_outdir = "$out_rel_dir/ProjectComparison/". md5_hex(join ('',@projCodes));``` creates a path that leaves out the EDGE subdirectory. For example, if...

Processes reporting as "failed"

1

From time to time, the Project Status changes to "Failed" in the GUI even though the process is actually still running. Sorry not to have more details, but I recall...

Option to disable report output

5

Forgive me if this is already somewhere, but it would be great to have an option not to generate the trimming reports. Currently I tack on ` --json /dev/null --html...

[BUG] Inconsistent capitalization in metadata files and schema

5

**Describe the bug** In v1.3.2 the fields `src-isolate` and `src-host` have been changed to capitalized `src-Isolate` and `src-Host` which break preparation scripts upstream. It is very difficult to deal with...

I get the following error when trying to flash the ESP32 using ESP-IDF 5.2 and command `idf.py flash -p COM6`: ``` C:/Users/oldgreg/picframe_colepd/firmware/main/main.c: In function 'app_main': C:/Users/oldgreg/picframe_colepd/firmware/main/main.c:88:9: error: unknown type name...