Young-mok Jung
Young-mok Jung
Hi husamia, Based on your log, the index file you downloaded seems to be incomplete! The reference size is 4354060288 in your log which should be 6434693834 for Homo_sapiens_assembly38.fasta. ```...
If you are using linux cmd line, you can use below command to download large file. * -c option restarts download from where it stopped., -T is for timeout ```bash...
Thats a good suggestion, I also added the md5sum in the webpage for all files [web.inalab.net/~bwa-meme/](https://web.inalab.net/~bwa-meme/). Thanks ``` Homo_sapiens_assembly38.fasta 7ff134953dcca8c8997453bbb80b6b5e Homo_sapiens_assembly38.fasta.0123 da7b1691d6284a69c465217f1d60ca82 Homo_sapiens_assembly38.fasta.amb e4dc4fdb7358198e0847106599520aa9 Homo_sapiens_assembly38.fasta.ann af611ed0bb9487fb1ba4aa1a7e7ad21c Homo_sapiens_assembly38.fasta.pac 178862a79b043a2f974ef10e3877ef86 Homo_sapiens_assembly38.fasta.pos_packed 08e0042ca5b78d02c65d3780824f6bc9...
Are you still having other seg fault problem even though you have the valid index files? I guess it should have resolved the issue. Based on what I have tried...
Your questions and comments are really helpful! We are excited to see people getting interested in our project. Thank you for bringing this to our attention. 1. Currently, BWT is...
Including all indexes and trained models the required files are as below. from v1.0.4 ( and master, dev branch) ```sh ref.fa.amb ref.fa.ann ref.fa.pac ref.fa.0123 ref.fa.pos_packed ref.fa.suffixarray_uint64_L1_PARAMETERS ref.fa.suffixarray_uint64_L2_PARAMETERS ``` ref.fa.suffixarray_uint64 is...
Yes you are correct, ref.fa file should be omitted from the list. The other files are necessary right now, we will remove requirement for `ref.fa.suffixarray_uint64` file soon.
Thats true, I just updated the code with multi-thread support for building MEME indexes. - The index build time is within 1 hour (depending on thread number) ~30minute for suffix...
> > Thats true, **I just updated the code with multi-thread support for building MEME indexes.** > > ``` > > * The index build time is within 1 hour...
> I noted in that the `*..suffixarray_uint64_L0_PARAMETERS` file is indicated as required for execution (with 1.0.4). I've found the process runs with only L1 and L2 available. Please advise if...