Francesco Cicconardi

Assemble self.N50 Error

3

Hi, I'm running `assemble` using this command line: ``` assemble -m hic_corrected.h5 -o ./assembly_output \ --min_scaffold_length 100000 --bin_size 5000 --misassembly_zscore_threshold -1.0 \ --num_iterations 3 --num_processors $THREADS ``` But I'm getting...

Hi, I was testing the new release of IsoQuant and I found this error: ``` 2024-05-11 15:15:01,206 - INFO - Running IsoQuant version 3.4.1 2024-05-11 15:15:01,527 - INFO - Novel...

Problems converting the GTF

1

Hi, FIrst of all, great tool! I'm annotating a new genome for which I have Nonopore IsoSeq data. I initially predicted the protein coding genes with BRALER/AUGUSTUS. Now my idea...

Stuck?

3

Hi, It's days that Broccoli is running like this during step 3:  Why is that? Thanks F

Segmentation fault

24

Hi, I just downloaded and installed the program: ``` Downloading and installing BWA BWA succesfully installed! Downloading and installing Smalt Smalt succesfully installed! Downloading and installing pigz pigz succesfully installed!...

make fails

2

Hi, I'm trying to compile portcullis. But I'm getting this error during `make`: ``` make all-recursive make[1]: Entering directory `/mnt/storage/scratch/tk19812/software/portcullis-Release-1.2.3' Making all in deps/htslib-1.3 make[2]: Entering directory `/mnt/storage/scratch/tk19812/software/portcullis-Release-1.2.3/deps/htslib-1.3' make all-am...

autogen.sh autoreconf ERROR

1

Hi, I'm trying to compile the software, but the autogen.sh returns me this error: autoreconf: Entering directory `.' autoreconf: configure.ac: not using Gettext autoreconf: running: aclocal --force -I m4 ${ACLOCAL_FLAGS}...

ZLIB error

3

Hi, I'm trying to compile Gap2Seq. I'm stuck at the cmake stage. Apparently it doesnt find `ZLIBConfig.cmake` even though I think I manage to correctly compile ZLIB. In fact `ZLIBConfig.cmake`...