funannotate setup database stuck on dbCAN

[hassantarabai]

Hello,

I tryed installing funannotate databases but its getting stuck on dbCAN database. Before it was working smoothly so not sure what might be the issue.

Here is the funannotate check result:

---

Checking dependencies for 1.8.13

You are running Python v 3.7.12. Now checking python packages... biopython: 1.79 goatools: 1.2.3 matplotlib: 3.4.3 natsort: 8.3.1 numpy: 1.21.6 pandas: 1.3.5 psutil: 5.9.3 requests: 2.28.2 scikit-learn: 1.0.2 scipy: 1.7.3 seaborn: 0.12.2 All 11 python packages installed

You are running Perl v b'5.032001'. Now checking perl modules... Carp: 1.50 Clone: 0.46 DBD::SQLite: 1.72 DBD::mysql: 4.046 DBI: 1.643 DB_File: 1.855 Data::Dumper: 2.183 File::Basename: 2.85 File::Which: 1.27 Getopt::Long: 2.54 Hash::Merge: 0.302 JSON: 4.10 LWP::UserAgent: 6.67 Logger::Simple: 2.0 POSIX: 1.94 Parallel::ForkManager: 2.02 Pod::Usage: 1.69 Scalar::Util::Numeric: 0.40 Storable: 3.15 Text::Soundex: 3.05 Thread::Queue: 3.14 Tie::File: 1.06 URI::Escape: 5.12 YAML: 1.30 local::lib: 2.000028 threads: 2.25 threads::shared: 1.61 All 27 Perl modules installed

Checking Environmental Variables... $FUNANNOTATE_DB=/home/hassan/funannotate_db $PASAHOME=/home/hassan/miniconda3/envs/funannotate2/opt/pasa-2.5.2 $TRINITY_HOME=/home/hassan/miniconda3/envs/funannotate2/opt/trinity-2.8.5 $EVM_HOME=/home/hassan/miniconda3/envs/funannotate2/opt/evidencemodeler-1.1.1 $AUGUSTUS_CONFIG_PATH=/home/hassan/miniconda3/envs/funannotate2/config/ $GENEMARK_PATH=/home/hassan/gene_mark/gmes_linux_64_4/ All 6 environmental variables are set

Checking external dependencies... PASA: 2.5.2 CodingQuarry: 2.0 Trinity: 2.8.5 augustus: 3.5.0 bamtools: bamtools 2.5.1 bedtools: bedtools v2.30.0 blat: BLAT v35 diamond: 2.1.4 emapper.py: 2.1.10 ete3: 3.1.2 exonerate: exonerate 2.4.0 fasta: no way to determine glimmerhmm: 3.0.4 gmap: 2021-08-25 hisat2: 2.2.1 hmmscan: HMMER 3.3.2 (Nov 2020) hmmsearch: HMMER 3.3.2 (Nov 2020) java: 17.0.3-internal kallisto: 0.46.1 mafft: v7.515 (2023/Jan/15) makeblastdb: makeblastdb 2.2.31+ minimap2: 2.24-r1122 pigz: pigz 2.6 proteinortho: 6.2.0 pslCDnaFilter: no way to determine salmon: salmon 0.14.1 samtools: samtools 1.16.1 signalp: 5.0b snap: 2006-07-28 stringtie: 2.2.1 tRNAscan-SE: 2.0.11 (Oct 2022) tantan: tantan 40 tbl2asn: no way to determine, likely 25.X tblastn: tblastn 2.2.31+ trimal: trimAl v1.4.rev15 build[2013-12-17] trimmomatic: 0.39 ERROR: gmes_petap.pl not installed

[hassantarabai]

Issue got solved .. Probably was an issue from download source.