Comments (3)
Sudo permission is only needed if you want to install AdapterRemoval for all users. If you simply want to use the program yourself, then you can run the executable directly from the build directory (./build/AdapterRemoval) after you've run the 'make' command, or move it to a folder listed in your PATH variable. That is how I use the program myself.
I do not plan to offer pip (AdapterRemoval is not a Python program) or conda packages. If you need help installing AdapterRemoval on a shared system, then you should contact your system administrator.
Cheers
from adapterremoval.
You can also install to another directory by setting PREFIX when running make
make install PREFIX=/path/to/install/dir
from adapterremoval.
Conda packages are now available for AdapterRemoval thanks to several kind contributors. You can install AdapterRemoval as follows:
conda install -c bioconda adapterremoval
or
conda install -c maxibor adapterremoval2
Feel free to open another issue if you have any further questions or if you run into any other problems.
Best,
Mikkel
from adapterremoval.
Related Issues (20)
- stdout and stderr reversed? HOT 1
- homebrew/science was deprecated HOT 1
- Adapter Removal running error HOT 2
- Internal barcodes HOT 5
- Support JSON log output HOT 3
- Add option for singular 'combined' output FASTQ files HOT 5
- Input file is overwritten and cut off HOT 3
- Adapters Not Being Trimmed (Apparently)? HOT 2
- collapse with SE reads HOT 3
- How to demultiplexing paired-end reads in mixed orientation? HOT 4
- installation Adapterremoval with Conda HOT 2
- AdapterRemoval v3 Feedback HOT 12
- remove adapters sequences from BGI/MGI platform HOT 1
- combine with other QC tools HOT 1
- How to interpret the outputs of the multiple inputs after trimming? HOT 4
- New version of catch.hpp needed for glibc >= 2.34 HOT 1
- [feature request] Add support for GNU make's staged install via DESTDIR flag HOT 1
- support .gz format fastq as input HOT 1
- adapterremoval add windows version HOT 2
- Any reason not to accept ambiguous bases? HOT 6
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