I am using Linux and received the Error message "ERROR: Component "BowtieIndexBuilder" failed" when running the example. it worked fine when using STAR aligner.
More detailed Error message:
ERROR: Component "BowtieIndexBuilder" failed, giving the following error message:
Settings:
Output files: "shapemapper_temp/example-results/AlignPrep/BowtieIndexBuilder/example-results_AlignPrep_BowtieIndexBuilder_index..bt2"
Line rate: 6 (line is 64 bytes)
Lines per side: 1 (side is 64 bytes)
Offset rate: 4 (one in 16)
FTable chars: 10
Strings: unpacked
Max bucket size: default
Max bucket size, sqrt multiplier: default
Max bucket size, len divisor: 4
Difference-cover sample period: 1024
Endianness: little
Actual local endianness: little
Sanity checking: disabled
Assertions: disabled
Random seed: 0
Sizeofs: void:8, int:4, long:8, size_t:8
Input files DNA, FASTA:
example_data/TPP.fa
Reading reference sizes
Time reading reference sizes: 00:00:00
Calculating joined length
Writing header
Reserving space for joined string
Joining reference sequences
Time to join reference sequences: 00:00:00
bmax according to bmaxDivN setting: 34
Using parameters --bmax 26 --dcv 1024
Doing ahead-of-time memory usage test
Passed! Constructing with these parameters: --bmax 26 --dcv 1024
Constructing suffix-array element generator
ShapeMapper run failed at 2024-02-05 09:32:59.
OS info:
NAME="Red Hat Enterprise Linux Server"
VERSION="7.9 (Maipo)"
ID="rhel"
ID_LIKE="fedora"
VARIANT="Server"
VARIANT_ID="server"
VERSION_ID="7.9"
PRETTY_NAME="Red Hat Enterprise Linux Server 7.9 (Maipo)"
ANSI_COLOR="0;31"
CPE_NAME="cpe:/o:redhat:enterprise_linux:7.9:GA:server"
HOME_URL="https://www.redhat.com/"
BUG_REPORT_URL="https://bugzilla.redhat.com/"
NAME="Red Hat Enterprise Linux Server"
VERSION="7.9 (Maipo)"
ID="rhel"
ID_LIKE="fedora"
VARIANT="Server"
VARIANT_ID="server"
VERSION_ID="7.9"
PRETTY_NAME="Red Hat Enterprise Linux Server 7.9 (Maipo)"
ANSI_COLOR="0;31"
CPE_NAME="cpe:/o:redhat:enterprise_linux:7.9:GA:server"
HOME_URL="https://www.redhat.com/"
BUG_REPORT_URL="https://bugzilla.redhat.com/"
I am using Linux and received the Error message "ERROR: Component "BowtieIndexBuilder" failed" when running the example. it worked fine when using STAR aligner.
More detailed Error message: ERROR: Component "BowtieIndexBuilder" failed, giving the following error message: Settings: Output files: "shapemapper_temp/example-results/AlignPrep/BowtieIndexBuilder/example-results_AlignPrep_BowtieIndexBuilder_index..bt2" Line rate: 6 (line is 64 bytes) Lines per side: 1 (side is 64 bytes) Offset rate: 4 (one in 16) FTable chars: 10 Strings: unpacked Max bucket size: default Max bucket size, sqrt multiplier: default Max bucket size, len divisor: 4 Difference-cover sample period: 1024 Endianness: little Actual local endianness: little Sanity checking: disabled Assertions: disabled Random seed: 0 Sizeofs: void:8, int:4, long:8, size_t:8 Input files DNA, FASTA: example_data/TPP.fa Reading reference sizes Time reading reference sizes: 00:00:00 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:00 bmax according to bmaxDivN setting: 34 Using parameters --bmax 26 --dcv 1024 Doing ahead-of-time memory usage test Passed! Constructing with these parameters: --bmax 26 --dcv 1024 Constructing suffix-array element generator
ShapeMapper run failed at 2024-02-05 09:32:59.
OS info: NAME="Red Hat Enterprise Linux Server" VERSION="7.9 (Maipo)" ID="rhel" ID_LIKE="fedora" VARIANT="Server" VARIANT_ID="server" VERSION_ID="7.9" PRETTY_NAME="Red Hat Enterprise Linux Server 7.9 (Maipo)" ANSI_COLOR="0;31" CPE_NAME="cpe:/o:redhat:enterprise_linux:7.9:GA:server" HOME_URL="https://www.redhat.com/" BUG_REPORT_URL="https://bugzilla.redhat.com/" NAME="Red Hat Enterprise Linux Server" VERSION="7.9 (Maipo)" ID="rhel" ID_LIKE="fedora" VARIANT="Server" VARIANT_ID="server" VERSION_ID="7.9" PRETTY_NAME="Red Hat Enterprise Linux Server 7.9 (Maipo)" ANSI_COLOR="0;31" CPE_NAME="cpe:/o:redhat:enterprise_linux:7.9:GA:server" HOME_URL="https://www.redhat.com/" BUG_REPORT_URL="https://bugzilla.redhat.com/"