Comments (8)
sfchen
commented on May 19, 2024
2
Implemented and fixed.
@mblue9 new version is already in Bioconda.
I am closing this issue.
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sfchen
commented on May 19, 2024
Thanks Phil.
In current design if polyG and polyX are both enabled, polyG will be ignored since I thought it's part of polyX.
Please wait for 10 minutes, I will make an update to support polyG trimming --> polyX trimming when they are both enabled.
Thanks
Shifu
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sfchen
commented on May 19, 2024
Hi @PAMorin
I just pushed the update.
Please try to build fastp with latest code on master. Or download http://opengene.org/fastp/fastp to test again.
Thanks
Shifu
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PAMorin
commented on May 19, 2024
Hi Shifu,
I asked our Linux system administrator to re-install fastp and forwarded
him your message. He tried this morning, and had problems. He wrote:
When I try to build fastp from the source code I am getting the
following error.....
[root@ahi fastp]# make
g++ -std=c++11 -g -I./inc -O3 -cĀ src/adaptertrimmer.cpp -o
obj/adaptertrimmer.o
cc1plus: error: unrecognized command line option "-std=c++11"
make: *** [obj/adaptertrimmer.o] Error 1
When I installed it the first time I downloaded the pre-compiled
binaries for CentOS/Unbuntu.Ā Has that distribution been updated - can
we install from that distribution?
Please let me know if we can install from the pre-compiled binaries, or
if there is another way to install.
Thanks,
Phil
ā¦On 3/8/18 4:53 PM, Shifu Chen wrote:
Hi @PAMorin <https://github.com/pamorin>
I just pushed the update.
Please try to build fastp with latest code on master. Or download
http://opengene.org/fastp/fastp to test again.
Thanks
Shifu
ā
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Southwest Fisheries Science Center
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sfchen
commented on May 19, 2024
Hi Phil,
Your system's gcc compiler is too old (before 2011), so that it doesn't support C++ 11. You can either:
- use the new pre-compiled binary of fastp, which can be downloaded from http://opengene.org/fastp/fastp
- or ask your system administrator to update the gcc compiler.
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mblue9
commented on May 19, 2024
Hi @sfchen I think I may have this issue too and would love to try this option, will there be a new Bioconda version of fastp with this?
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sfchen
commented on May 19, 2024
Hi @mblue9
A new version of fastp will be released once these new features are well tested. Bioconda version will also be updated soon (usually with one day delay).
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mblue9
commented on May 19, 2024
Great, thanks!
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