Question: (Closed) Sleuth error Error: Duplicate identifiers for rows
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gravatar for jarod_v6@libero.it
19 months ago by
Italy
jarod_v6@libero.it40 wrote:

I try to use sleuth package but I have this error:

 more logs/sleuth_run.log
There were 24 warnings (use warnings() to see them)
reading in kallisto results
dropping unused factor levels
......
normalizing est_counts
Error: Duplicate identifiers for rows (4, 5), (10, 11), (16, 17), (22, 23), (28, 29), (
34, 35), (40, 41), (46, 47), (52, 53), (58, 59), (64, 65), (70, 71), (76, 77), (82, 83)
, (88, 89), (94, 95), (100, 101), (106, 107), (112, 113), (118, 119), (124, 125), (130,
 131), (136, 137), (142, 143), (148, 149), (154, 155), (160, 161), (166, 167), (172, 17
3), (178, 179), (184, 185), (190, 191), (196, 197), (202, 203), (208, 209), (214, 215),
 (220, 221), (226, 227), (232, 233), (238, 239), (244, 245), (250, 251), (256, 257), (2
62, 263), (268, 269), (274, 275), (280, 281), (286, 287), (292, 293), (298, 299), (304,
 305), (310, 311), (316, 317), (322, 323), (328, 329), (334, 335), (340, 341), (346, 34
7), (352, 353), (358, 359), (364, 365), (370, 371), (376, 377), (382, 383), (388, 389),
 (394, 395), (400, 401), (406, 407), (412, 413), (418, 419), (424, 425), (430, 431), (4
36, 437), (442, 443), (448, 449), (454, 455), (460, 461), (466, 467), (472, 473), (478,
 479), (484, 485), (490, 491), (496, 497),
Execution halted
(TEST_ripper) [centos@pol-produ TEST_ripper]$ source activate /home/centos/data/TEST_ripper/.snakemake/conda/0a50c5fe
(/home/centos/data/TEST_ripper/.snakemake/conda/0a50c5fe) [centos@pol-produ TEST_ripper]$ R

R version 3.3.2 (2016-10-31) -- "Sincere Pumpkin Patch"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)


> library("sleuth")
Loading required package: ggplot2
Loading required package: dplyr

Attaching package: ‘dplyr’

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> sessionInfo()
R version 3.3.2 (2016-10-31)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=it_IT.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=it_IT.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=it_IT.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=it_IT.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] sleuth_0.29.0 dplyr_0.5.0   ggplot2_2.2.1

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.13      assertthat_0.1    grid_3.3.2        plyr_1.8.4       
 [5] R6_2.2.0          gtable_0.2.0      DBI_0.6-1         magrittr_1.5     
 [9] scales_0.4.1      lazyeval_0.2.0    data.table_1.10.4 tools_3.3.2      
[13] munsell_0.4.3     colorspace_1.3-2  tibble_1.2 
sleuth biconductor • 313 views
ADD COMMENTlink modified 19 months ago • written 19 months ago by jarod_v6@libero.it40

Hello jarod_v6@libero.it!

We believe that this post does not fit the main topic of this site.

Sleuth isn't a Bioconductor package. The Github page for Sleuth has some information where you can get help.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

ADD REPLYlink written 19 months ago by James W. MacDonald50k

Sorry, Please delete this question

 

ADD REPLYlink written 19 months ago by jarod_v6@libero.it40
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