Jennie (Xiang) Li

Hi, Is this issue resolved? I installed `doubletfinder` yesterday and was experiencing this error: ``` > paramSweep(s, PCs = 1:10, sct = FALSE) Error in seu@assays$RNA$counts : $ operator not...

I tried `sim` with a different set of control where I provided the directory to the actual fast5 files, but still got the same error. ``` /var/spool/slurmd/job10576865/slurm_script: line 34: 22175...

Is it possible for you to provide the control fast5 and control sequencing summary files that have run successful simulations before? I will test it on my end to ensure...

Thank you very much. Just to confirm, is the reference genome the `E.coli.fasta`? Also, is the sequencing summary for ctl and unc the same txt file?

There is segmentation fault again after 2 hours. `err.txt`: [uncalled_err.txt](https://github.com/skovaka/UNCALLED/files/10990633/uncalled_err.txt) my script: ``` # MAIN SCRIPT bwa_prefix="sim_data/E.coli" ref_genome="sim_data/E.coli.fa" path_ctl_fast5s="sim_data/20190809_zymo_control/fast5" path_ctl_seqsum="sim_data/zymo_control_sequencing_summary.txt" path_unc_seqsum="sim_data/20190809_zymo_seqsum.txt" path_unc_paf="sim_data/20190809_zymo_uncalled.paf" # python UNCALLED/scripts/uncalled index -o sim_data/E.coli sim_data/E.coli.fa python...

I followed the example code and revised a pod5 file successfully. However, when I try to check the content using `pod5 view`, I get this error (the same error if...

``` pod5 view "output2.pod5" ```

Tried and still the same error. ``` $ pod5 view original.pod5 read_id filename read_number channel mux end_reason start_time start_sample duration num_samples minknow_events sample_rate median_before predicted_scaling_scale predicted_scaling_shift tracked_scaling_scale tracked_scaling_shift num_reads_since_mux_change time_since_mux_change...

Yes my `polars==0.20`. Note that I have to run `pip install -U polars==0.19`, otherwise it would say "requirement already satisfied". The error was fixed. Thanks!

We have been using `max_chunks=1` for a very long time and the results were fine. Here I am only providing targeted region's reference, so I don't need to specify `targets`