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bcgsc
:microscope: Assemble large genomes using short reads
``` Common/SAM.cc:65:2: error: use of undeclared identifier 'EXPECT_DEATH' EXPECT_DEATH(SAMAlignment::parseCigar("20SS", false), "error: invalid CIGAR: `20SS'"); ^ Common/SAM.cc:66:2: error: use of undeclared identifier 'EXPECT_DEATH' EXPECT_DEATH(SAMAlignment::parseCigar("20m", false), "error: invalid CIGAR: `20m'"); ^ ```...
Hi, I'm running an analysis that repeatedly fails at the abyss-overlap step and it seems to be tied to the size of the input. I'm running `ABySS version 1.9.0` on...
# Please report - [ ] version of ABySS with `abyss-pe version` ``` abyss-pe (ABySS) 2.3.1 ``` - [ ] distribution of Linux with `lsb_release -d` ``` CentOS Linux release...
Hi, I am trying older gcc versions and I received: ``` checking for tr1/functional... yes checking boost/functional/hash.hpp usability... yes checking boost/functional/hash.hpp presence... yes checking for boost/functional/hash.hpp... yes checking boost/property_map/property_map.hpp usability......
The v2.0.3 version of AbySS failing due to a "deleted function". GCC Suite: 7.2.0 Boost: 1.66.0 OpenMPI: 3.0.0 Sparsehash: 2.0.3 ## Configure command: `./configure --prefix=/home/eli --with-boost=/home/eli/src/boost_1_66_0/stage/lib FC=/usr/local/bin/gfortran CFLAGS="-m64 -O3 -mtune=core2"...
# Please report - [ ] version of ABySS with `abyss-pe version` abyss-pe (ABySS) 2.3.5 - [ ] distribution of Linux with `lsb_release -d` Red Hat Enterprise Linux Server release...
**error after running my data with abyss-pe using slurm script, test data works fine** **- [ ] version of ABySS with `abyss-pe version`** abyss-pe (ABySS) 2.3.5 **- [ ] distribution...
I tried to build abyss-2.3.4 with the following *FLAGS to optimize the build: `-flto=4 -Werror=odr -Werror=lto-type-mismatch -Werror=strict-aliasing` Note the -Werror=* flags are used to help detect cases where the compiler...
# Please report - [ ] version of ABySS with `abyss-pe version` - [ ] (abyss) [juaguila@u01 abyss-763]$ abyss-pe version bash: line 0: test: -le: unary operator expected abyss-pe (ABySS)...