Comments (5)
Kinggerm
commented on August 12, 2024
Could you please provide the spades.log file for troubleshooting? Thanks.
BTW, complete get_org.log.txt will be preferred.
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WEIGUO93
commented on August 12, 2024
I have the same problem
spades.log
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Kinggerm
commented on August 12, 2024
@WEIGUO93
get_org.log.txt required!!
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WEIGUO93
commented on August 12, 2024
get_org.log.txt
spades.log
Problems I encountered while testing my own data
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Kinggerm
commented on August 12, 2024
@WEIGUO93
The issue you encountered may be different from above, which is due to the insufficient target coverage. SPAdes barely found overlaps from the limited reads.
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Related Issues (20)
- Estimated XX base-coverage = 0.00 HOT 5
- Disentangling failed: 'Unrecognized GFA version number: 1.2' HOT 2
- BLAST Database error: Error: Not a valid version 4 database. HOT 3
- ERROR ON UNZIPPING THE .gz file HOT 3
- ERROR: Disentangling failed: Failed in 'from scipy import stats, inf, log'! HOT 3
- Regarding the Use of Incomplete Plant Mitochondrial Genome Assembly Outputs for Subsequent Analysis HOT 2
- failing from flye assembly graph of a phage genome with 4 circular paths HOT 5
- Disentangling failed: 'Unable to generate result with single copy vertex percentage < 50%' HOT 20
- TypeError: execute_blast() got an unexpected keyword argument 'percent_identity' HOT 2
- An input/output error while running Getorganelle HOT 1
- Increase the insert size length to improve assembly completeness HOT 1
- difference in assembly size of circular and scaffold cp genomes #326 HOT 2
- No target organelle contigs found / no sequence hit our LabelDatabase HOT 1
- No animal_mt seed reads found!
- TypeError: can't convert complex to int. HOT 1
- math domain error
- get_organelle_from_reads.py can not find the embplant_nr db in SGE
- something went wrong when using -F anonym without --target-genome-size
- Abnormal assembly size due to incorrectly including shallow-coverage mt contig(s) in the embplant_pt selected_graph HOT 2
- ValueError: max() iterable argument is empty HOT 1
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