ablab/spades

Issues

• system call for: "['/opt/conda/envs/assembly/bin/spades-hammer', '/data/work/DNBSEQ/data1/SPAdes/corrected/configs/config.info']" finished abnormally, OS return value: 21

  #1415 opened 3 days ago by xiaoxinganlin
  1

• Phyluce CRITICAL issues - Expected assembly files were not found in output.

  #1413 opened 6 days ago by jb23590
  4

• can I ignore these warnings and proceed with the next step of analysis using the assembly results?

  #1411 opened 14 days ago by luu520
  0

• Issues with pathracer after 4.0 update

  #1401 opened 20 days ago by myco-bradshaw
  3

• Spades fails to compile from source on an aws r7i.2xlarge instance

  #1362 opened 18 days ago by wiebepo
  8

• spades-hammer finishing with abnormally, OS return value: -7 but with an (possibly) error message saying 'None' after 'writing down entries'

  #1400 opened a month ago by jfy133
  2

• OS return value: -7

  #1376 opened 2 months ago by LaurenceHdL
  1

• output

  #1408 opened 22 days ago by wanboqi
  3

• Memory allocation error and abnormal termination, OS return value: -6

  #1404 opened 25 days ago by vivaxp5
  0

• Spades, No Read Error Correction

  #1403 opened a month ago by ufaroooq
  1

• spades-hammer error : OS return value: -6

  #1402 opened a month ago by AmaliT
  1

• Spades hammer error

  #1387 opened 2 months ago by zafranulhaq12
  7

• Assembly of single cells with spades

  #1398 opened a month ago by beacamara
  1

• CoverageData::inc_coverage(int): Assertion `value >= 0 || coverage_ > unsigned(-value)' failed

  #1397 opened a month ago by wanghang7410
  2

• metaspades hangs on k53 when in snakemake workflow

  #1393 opened a month ago by pdimens
  5

• Mismatch between Paths in GFA/.paths and scaffolds.fasta

  #1395 opened a month ago by schorlton-bugseq
  3

• system call for:ERRORs

  #1396 opened a month ago by WJW024958
  1

• finished abnormally, OS return value: -6 None

  #1394 opened a month ago by ZainBioBytes
  3

• How to generate an agp file from the scaffolds of spades?

  #1389 opened 2 months ago by Bio-finder
  2

• The software did not run successfully

  #1390 opened 2 months ago by Ding327782
  1

• Cannot open temporary file for writing. OS return value: 108

  #1386 opened 2 months ago by ShyGuy509
  1

• SPAdes is running abnormally, with some errors.

  #1385 opened 2 months ago by TAXICANI
  1

• mimalloc: warning: unable to allocate aligned OS memory directly, fall back to over-allocation

  #1384 opened 2 months ago by ranweiwei66
  1

• Ideas for Assembling an Extremely Large Dataset

  #1373 opened 2 months ago by howla1ke
  1

• mmap2 and memory

  #1383 opened 2 months ago by gnasseruncc
  0

• python3: relocation error

  #1382 opened 2 months ago by zivlang
  1

• (Hybrid) metaSPAdes finished abnormally, OS return value: 1

  #1381 opened 2 months ago by Hedi65
  1

• OS return value: 21

  #1379 opened 2 months ago by lyisrae1
  1

• == Error == system call for: "['/home/sd02/rww/install/miniconda3/bin/spades-core', '/home/sd02/rww/rawdata/RX3/fastp/spades/K77/configs/config.info']" finished abnormally, OS return value: -6

  #1372 opened 2 months ago by ranweiwei66
  3

• os return value 5

  #1377 opened 2 months ago by LaurenceHdL
  1

• os return value: 1

  #1378 opened 2 months ago by LaurenceHdL
  0

• spades problem

  #1374 opened 2 months ago by ayan-bt
  1

• OS return value: 4

  #1371 opened 2 months ago by rows0
  2

• I have error with Spades for assembling viral sequence

  #1370 opened 2 months ago by lqhungpt
  1

• Question about the use of --trusted-contigs feature in Spades

  #1367 opened 2 months ago by Subhajeet1997
  0

• Segmentation fault during Kmer counting for metaplasmidSPAdes: Only for a few samples

  #1368 opened 2 months ago by Las02
  0

• finished abnormally, OS return value: -6

  #1365 opened 2 months ago by Asraid
  3

• OS return value: -9

  #1356 opened 3 months ago by Wanli-HE
  5

• == Error == system call for: "['spades-core', 'K55/configs/config.info']" finished abnormally, OS return value: -7

  #1363 opened 3 months ago by dozhun
  1

• Minority mutations used for final assembly (metaspades, hybrid ONT-SR)

  #1350 opened 3 months ago by lborcard
  4

• AttributeError

  #1364 opened 3 months ago by daidiy1109
  2

• Verification of expression 'cov_.size() > 10' failed in function 'void coverage_model::KMerCoverageModel::Fit()'

  #1361 opened 3 months ago by caiji-lh
  1

• Cannot find FASTQ files referenced by "Quick start" to test the installation

  #1358 opened 3 months ago by fantauzzi
  1

• Error OS 21

  #1359 opened 3 months ago by azat1391
  1

• Error when using conda spades

  #1360 opened 3 months ago by eggrandio
  2

• Files with merged reads were ignored

  #1355 opened 3 months ago by braddmg
  6

• spades 4.0.0 mmap(2) failed. Reason: Cannot allocate memory. Error code: 12

  #1354 opened 3 months ago by WangYF1989
  5

• spades-core: /spades/assembler/src/common/assembly_graph/core/debruijn_data.hpp:38: void debruijn_graph::CoverageData::inc_coverage(int): Assertion `value >= 0 || coverage_ > unsigned(-value)' failed.

  #1351 opened 3 months ago by Amandkaur
  1

• sequence name is empty

  #1349 opened 4 months ago by mmani4
  3

• == Error == system call for: finished abnormally, OS return value: 21 (Pair of read files contain unequal amount of reads)

  #1348 opened 4 months ago by yiasei
  8