Comments (3)
Sorry, I dont know how to fix this problem. But i can share my 'smartie-sv' file with you. I have installed it successfully in my server. I hope this compiled program can be run directly on your server.
transfer link: https://cowtransfer.com/s/e31c7bedbdbe4a or access [ cowtransfer.com ] and input extract code: t824xf to download;
Best,
Xu
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thanks for responding to the last issue and I was able to resolve this one using directly on linux server. Now, I have encounrtered another issue...
perl 01.Reference_Nonreference_TEinsertion.pl -query query.info.txt -ref reference.info.lst -TElib EDTA.TElib.fa -bin /home/baicai/smartie-sv/bin -script /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts/
Wed Jul 27 16:30:56 2022: COMMAND: perl /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts//Run_smartie-sv.pl 2127 ref.fa ref /home/baicai/smartie-sv/bin
Cwd.c: loadable library and perl binaries are mismatched (got handshake key 0xde00080, needed 0xed00080)
failed: perl /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts//Run_smartie-sv.pl 2127 ref.fa ref /home/baicai/smartie-sv/bin
can you please assist me, how can I resolve this one?
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I have used the link that you have just sent and downloaded that but it is still causing errors as follows
(blasrenv) baicai@bioinformatics-07:/home/data1/baicai/AWAIS/dependencies/ITIPs-main$ perl 01.Reference_Nonreference_TEinsertion.pl -query query.info.txt -ref reference.info.lst -TElib EDTA.TElib.fa -bin /home/data1/baicai/AWAIS/dependencies/smartie-sv/bin -script /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts/
Fri Aug 12 18:13:41 2022: COMMAND: perl /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts//Run_smartie-sv.pl 2127 ref.fa ref /home/data1/baicai/AWAIS/dependencies/smartie-sv/bin
Use of uninitialized value $smartie_sv in concatenation (.) or string at /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts//Run_smartie-sv.pl line 21.
Error: cannot find: /sawriter
failed: perl /home/data1/baicai/AWAIS/dependencies/ITIPs-main/scripts//Run_smartie-sv.pl 2127 ref.fa ref /home/data1/baicai/AWAIS/dependencies/smartie-sv/bin
please help me sort out this error
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Related Issues (10)
- smartie-sv-dependency issue HOT 2
- How to detect the aligned and unaligned regions in step 2 ? HOT 4
- Genomic data for NHCC001 and ZYCX renamed as PCC and PCD HOT 2
- Please resequence the file can be long read?such as Pacbio or ONT? Thanks HOT 1
- Does the third step of genotyping mean that each sample is divided separately? Or will the resequencing files be merged and divided? HOT 1
- Some question about TIPs indentifacation in population scale HOT 2
- Hello question about insertions and deletions
- 请问下怎么确定TE library,是每个样品通过EDTA检测出来的TE lib合并还是指单独某个参考基因组的TE lib呢? HOT 2
- About insertions and deletions?
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