FALCON-integrate

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Hello I'm trying to install FALCON but i have several error messages. First I followed this tutorial https://pb-falcon.readthedocs.io/en/latest/quick_start.html and it just didnt work. when I run: bash -ex install_unzip.sh /path/to/your/install/dir...

Valentin-Bio-zz

install error

1

hi，when I installed the FALCON-integrate as follow,I mat an error in "make -j all": export GIT_SYM_CACHE_DIR=~/.git-sym-cache # to speed things up git clone git://github.com/PacificBiosciences/FALCON-integrate.git cd FALCON-integrate git checkout develop #...

shiyi-pan

I installed the falcon version falcon-2017.06.28-18.01-py2.7-ucs4.tar.gz and run the fc_run.py script with the test greg200k-sv2 data and met an error like that : [INFO]Apparently '/ds3512/home/panyp/denovo/falcon/ecoli2' is not in lustre filesystem,...

shiyi-pan

input preads errors

3

when i set the input_type = preads, the errors show below: ``` [11291]$(u'lfs setstripe -c 12 /home/yplee/falcon_correct') sh: lfs: command not found [11291]WARNING: Call u'lfs setstripe -c 12 /home/yplee/falcon_correct' returned...

yplee614

Falcon assembly is incomplete

1

Hi, I am using the falcon assembler for assembling fungal genome and its genome size is around 120 Mb and it just produced the 184K of the p-contigs. Below is...

madhubioinfo

Remove level 1 and level 2 las files

2

Is there a simple and automatic option to remove L1 and L2 las files after all sorts and merges are finished? Large genomes, lots of coverage (240x) with Sequel data...

fbemm

P contigs of length 0

2

Hello, I realized that after Falcon Unzip I have some p-contigs of length 0 (there is an empty line), while there are haplotigs for that sequence. Counting the length: ```...

dcopetti

Nomenclature of FALCON contigs

1

Hi, I am analyzing the p- and a-contigs of a FALCON assembly, and within the p-contigs I see that there are canonical linear contigs (e.g. 003655F), circular contigs (3702) and...

dcopetti

LA4Falcon segmentation fault

4

We are experiencing a seg fault with LA4Falcon on our CentOS 6.9 server, using Falcon from pitchfork. The fault is happening in the `0-rawreads/preads/cns_00170` task: ``` $ cat c_00170.sh #!/bin/bash...

AGI-chandler

Make test passed but failed to run ecoli test

2

I installed FALCON-integrate on my VM (CentOS 7.1, 4 vCPU, 4G RAM). The installation seems to be correct because the `make test` showed that "shifted by 3269 (rc)". Then, I...

EnigmaHuang