Package evaluation of VCFTools on Julia 1.10.9 (96dc2d8c45*) started at 2025-06-06T17:06:38.510 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 5.4s ################################################################################ # Installation # Installing VCFTools... Resolving package versions... Updating `~/.julia/environments/v1.10/Project.toml` [a620830f] + VCFTools v0.2.10 Updating `~/.julia/environments/v1.10/Manifest.toml` [7d9f7c33] + Accessors v0.1.42 [66dad0bd] + AliasTables v1.1.3 ⌅ [67c07d97] + Automa v0.8.4 [28d598bf] + BGZFStreams v0.3.2 [47718e42] + BioGenerics v0.1.5 [e1450e63] + BufferedStreams v1.2.2 [944b1d66] + CodecZlib v0.7.8 [861a8166] + Combinatorics v1.0.3 [38540f10] + CommonSolve v0.2.4 [34da2185] + Compat v4.16.0 [a33af91c] + CompositionsBase v0.1.2 [187b0558] + ConstructionBase v1.5.8 [9a962f9c] + DataAPI v1.16.0 [864edb3b] + DataStructures v0.18.22 [8bb1440f] + DelimitedFiles v1.9.1 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.4 [1a297f60] + FillArrays v1.13.0 [34004b35] + HypergeometricFunctions v0.3.28 [09f84164] + HypothesisTests v0.11.5 [3587e190] + InverseFunctions v0.1.17 [92d709cd] + IrrationalConstants v0.2.4 [692b3bcd] + JLLWrappers v1.7.0 [2ab3a3ac] + LogExpFunctions v0.3.29 [1914dd2f] + MacroTools v0.5.16 [e1d29d7a] + Missings v1.2.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [21216c6a] + Preferences v1.4.3 [92933f4c] + ProgressMeter v1.10.4 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [79098fc4] + Rmath v0.8.0 [f2b01f46] + Roots v2.2.7 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.5 [4c63d2b9] + StatsFuns v1.5.0 ⌅ [3bb67fe8] + TranscodingStreams v0.9.13 [a620830f] + VCFTools v0.2.10 [28eba6e3] + VariantCallFormat v0.5.6 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8ba89e20] + Distributed [b77e0a4c] + InteractiveUtils [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [de0858da] + Printf [9a3f8284] + Random [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization [6462fe0b] + Sockets [2f01184e] + SparseArrays v1.10.0 [10745b16] + Statistics v1.10.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [4536629a] + OpenBLAS_jll v0.3.23+4 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.2.1+1 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Installation completed after 8.28s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling package dependencies... Precompilation completed after 24.64s ################################################################################ # Testing # Testing VCFTools Status `/tmp/jl_GfyN59/Project.toml` [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [a93c6f00] DataFrames v1.7.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [09f84164] HypothesisTests v0.11.5 [92933f4c] ProgressMeter v1.10.4 [276daf66] SpecialFunctions v2.5.1 [2913bbd2] StatsBase v0.34.5 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.6 [ade2ca70] Dates [f43a241f] Downloads v1.6.0 [37e2e46d] LinearAlgebra [9a3f8284] Random [8dfed614] Test Status `/tmp/jl_GfyN59/Manifest.toml` [7d9f7c33] Accessors v0.1.42 [66dad0bd] AliasTables v1.1.3 ⌅ [67c07d97] Automa v0.8.4 [28d598bf] BGZFStreams v0.3.2 [47718e42] BioGenerics v0.1.5 [e1450e63] BufferedStreams v1.2.2 [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [861a8166] Combinatorics v1.0.3 [38540f10] CommonSolve v0.2.4 [34da2185] Compat v4.16.0 [a33af91c] CompositionsBase v0.1.2 [187b0558] ConstructionBase v1.5.8 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.4 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [34004b35] HypergeometricFunctions v0.3.28 [09f84164] HypothesisTests v0.11.5 [842dd82b] InlineStrings v1.4.3 [3587e190] InverseFunctions v0.1.17 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [b964fa9f] LaTeXStrings v1.4.0 [2ab3a3ac] LogExpFunctions v0.3.29 [1914dd2f] MacroTools v0.5.16 [e1d29d7a] Missings v1.2.0 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.35 [69de0a69] Parsers v2.8.3 [2dfb63ee] PooledArrays v1.4.3 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [92933f4c] ProgressMeter v1.10.4 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [189a3867] Reexport v1.2.2 [79098fc4] Rmath v0.8.0 [f2b01f46] Roots v2.2.7 [91c51154] SentinelArrays v1.4.8 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.5 [4c63d2b9] StatsFuns v1.5.0 [892a3eda] StringManipulation v0.4.1 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 ⌅ [3bb67fe8] TranscodingStreams v0.9.13 [a620830f] VCFTools v0.2.10 [28eba6e3] VariantCallFormat v0.5.6 [ea10d353] WeakRefStrings v1.4.2 [76eceee3] WorkerUtilities v1.6.1 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [0dad84c5] ArgTools v1.1.1 [56f22d72] Artifacts [2a0f44e3] Base64 [ade2ca70] Dates [8ba89e20] Distributed [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching [9fa8497b] Future [b77e0a4c] InteractiveUtils [b27032c2] LibCURL v0.6.4 [8f399da3] Libdl [37e2e46d] LinearAlgebra [56ddb016] Logging [d6f4376e] Markdown [a63ad114] Mmap [ca575930] NetworkOptions v1.2.0 [de0858da] Printf [9a3f8284] Random [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization [6462fe0b] Sockets [2f01184e] SparseArrays v1.10.0 [10745b16] Statistics v1.10.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [8dfed614] Test [cf7118a7] UUIDs [4ec0a83e] Unicode [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.4.0+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.2+1 [14a3606d] MozillaCACerts_jll v2023.1.10 [4536629a] OpenBLAS_jll v0.3.23+4 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.2.1+1 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.52.0+1 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... Test Summary: | Pass Total Time H-W test | 1 1 2.9s Test Summary: | Pass Total Time openvcf | 4 4 1.5s Test Summary: | Pass Total Time nrecords(vcf) | 1 1 1.8s Test Summary: | Pass Total Time nsamples(vcf) | 1 1 0.0s Test Summary: | Pass Total Time gtstats(record) | 4 4 1.4s ┌ Warning: `Progress(n::Integer, dt::Real, desc::AbstractString = "Progress: ", barlen = nothing, color::Symbol = :green, output::IO = stderr; offset::Integer = 0)` is deprecated, use `Progress(n; dt = dt, desc = desc, barlen = barlen, color = color, output = output, offset = offset)` instead. │ caller = ip:0x0 └ @ Core :-1 Progress: 0%| | ETA: 0:15:20 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 6.724988 seconds (2.79 M allocations: 252.838 MiB, 1.22% gc time, 89.66% compilation time) 0.537315 seconds (825.22 k allocations: 119.395 MiB, 4.37% gc time, 13.20% compilation time) Progress: 0%| | ETA: 0:14:32 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 1.750736 seconds (1.38 M allocations: 155.146 MiB, 1.51% gc time, 73.53% compilation time) 0.484120 seconds (824.53 k allocations: 119.573 MiB, 1.70% gc time) Test Summary: | Pass Total Time gtstats(vcf) | 12 12 11.3s Test Summary: | Pass Total Time get sampleID | 4 4 0.0s Test Summary: | Pass Total Time Fishers exact HWE test | 20 20 0.0s Test Summary: | Pass Total Time filter_genotype(record) | 9 9 1.0s Test Summary: | Pass Total Time filter_genotype(file) | 4068 4068 1.3s Test Summary: | Pass Total Time flip_gt_allele | 4 4 0.5s Test Summary: | Pass Total Time match_gt_allele | 4 4 0.1s Test Summary: | Pass Total Time binomial_proportion_test | 2 2 1.7s [ Info: Scan IDs in reference panel Progress: 0%|▏ | ETA: 0:14:32 Progress: 0%|▏ | ETA: 0:11:14 Progress: 1%|▎ | ETA: 0:10:10 Progress: 1%|▍ | ETA: 0:09:39 Progress: 1%|▍ | ETA: 0:09:22 Progress: 1%|▌ | ETA: 0:09:08 Progress: 1%|▋ | ETA: 0:09:00 Progress: 2%|▋ | ETA: 0:08:52 Progress: 2%|▊ | ETA: 0:08:46 Progress: 2%|▉ | ETA: 0:08:41 Progress: 2%|▉ | ETA: 0:08:37 Progress: 2%|█ | ETA: 0:08:34 Progress: 3%|█▏ | ETA: 0:08:31 Progress: 3%|█▏ | ETA: 0:08:28 Progress: 3%|█▎ | ETA: 0:08:25 Progress: 3%|█▍ | ETA: 0:08:21 Progress: 3%|█▍ | ETA: 0:08:18 Progress: 4%|█▌ | ETA: 0:08:16 Progress: 4%|█▋ | ETA: 0:08:14 Progress: 4%|█▋ | ETA: 0:08:12 Progress: 4%|█▊ | ETA: 0:08:10 Progress: 4%|█▉ | ETA: 0:08:08 Progress: 5%|█▉ | ETA: 0:08:06 Progress: 5%|██ | ETA: 0:08:05 Progress: 5%|██▏ | ETA: 0:08:03 Progress: 5%|██▏ | ETA: 0:08:01 Progress: 5%|██▎ | ETA: 0:08:00 Progress: 6%|██▍ | ETA: 0:07:58 Progress: 6%|██▍ | ETA: 0:07:57 Progress: 6%|██▌ | ETA: 0:07:55 Progress: 6%|██▋ | ETA: 0:07:54 Progress: 7%|██▋ | ETA: 0:07:53 Progress: 7%|██▊ | ETA: 0:07:53 Progress: 7%|██▉ | ETA: 0:07:52 Progress: 7%|██▉ | ETA: 0:07:51 Progress: 7%|███ | ETA: 0:07:51 Progress: 7%|███▏ | ETA: 0:07:50 Progress: 8%|███▏ | ETA: 0:07:49 Progress: 8%|███▎ | ETA: 0:07:49 Progress: 8%|███▎ | ETA: 0:07:48 Progress: 8%|███▍ | ETA: 0:07:47 Progress: 8%|███▌ | ETA: 0:07:46 Progress: 9%|███▌ | ETA: 0:07:46 Progress: 9%|███▋ | ETA: 0:07:45 Progress: 9%|███▊ | ETA: 0:07:44 Progress: 9%|███▊ | ETA: 0:07:43 Progress: 9%|███▉ | ETA: 0:07:43 Progress: 10%|████ | ETA: 0:07:42 Progress: 10%|████ | ETA: 0:07:41 Progress: 10%|████▏ | ETA: 0:07:40 Progress: 10%|████▏ | ETA: 0:07:38 Progress: 100%|█████████████████████████████████████████| Time: 0:00:52 [ Info: Match target IDs to reference IDs Progress: 0%| | ETA: 9:12:28 Progress: 22%|█████████▏ | ETA: 0:02:54 Progress: 48%|███████████████████▌ | ETA: 0:00:56 Progress: 73%|█████████████████████████████▉ | ETA: 0:00:20 Progress: 99%|████████████████████████████████████████▌| ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:53 [ Info: 823 records are matched 116.198277 seconds (678.89 M allocations: 70.823 GiB, 5.79% gc time, 0.12% compilation time) [ Info: Scan IDs in reference panel Progress: 0%|▏ | ETA: 0:08:06 Progress: 0%|▏ | ETA: 0:08:08 Progress: 1%|▎ | ETA: 0:08:09 Progress: 1%|▍ | ETA: 0:08:08 Progress: 1%|▍ | ETA: 0:08:07 Progress: 1%|▌ | ETA: 0:08:07 Progress: 1%|▋ | ETA: 0:08:06 Progress: 2%|▋ | ETA: 0:08:05 Progress: 2%|▊ | ETA: 0:08:05 Progress: 2%|▉ | ETA: 0:08:03 Progress: 2%|▉ | ETA: 0:08:02 Progress: 2%|█ | ETA: 0:08:00 Progress: 3%|█▏ | ETA: 0:07:59 Progress: 3%|█▏ | ETA: 0:07:58 Progress: 3%|█▎ | ETA: 0:07:57 Progress: 3%|█▍ | ETA: 0:07:57 Progress: 3%|█▍ | ETA: 0:07:56 Progress: 4%|█▌ | ETA: 0:07:55 Progress: 4%|█▋ | ETA: 0:07:53 Progress: 4%|█▋ | ETA: 0:07:52 Progress: 4%|█▊ | ETA: 0:07:50 Progress: 5%|█▉ | ETA: 0:07:49 Progress: 5%|█▉ | ETA: 0:07:48 Progress: 5%|██ | ETA: 0:07:47 Progress: 5%|██▏ | ETA: 0:07:46 Progress: 5%|██▏ | ETA: 0:07:45 Progress: 6%|██▎ | ETA: 0:07:43 Progress: 6%|██▍ | ETA: 0:07:42 Progress: 6%|██▌ | ETA: 0:07:41 Progress: 6%|██▌ | ETA: 0:07:40 Progress: 6%|██▋ | ETA: 0:07:39 Progress: 7%|██▊ | ETA: 0:07:38 Progress: 7%|██▊ | ETA: 0:07:36 Progress: 7%|██▉ | ETA: 0:07:35 Progress: 7%|███ | ETA: 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0%|▏ | ETA: 0:08:18 Progress: 0%|▏ | ETA: 0:08:16 Progress: 1%|▎ | ETA: 0:08:17 Progress: 1%|▍ | ETA: 0:08:09 Progress: 1%|▍ | ETA: 0:08:10 Progress: 1%|▌ | ETA: 0:08:10 Progress: 1%|▋ | ETA: 0:08:09 Progress: 2%|▋ | ETA: 0:08:07 Progress: 2%|▊ | ETA: 0:08:07 Progress: 2%|▉ | ETA: 0:08:06 Progress: 2%|▉ | ETA: 0:08:03 Progress: 2%|█ | ETA: 0:08:03 Progress: 3%|█▏ | ETA: 0:08:01 Progress: 3%|█▏ | ETA: 0:08:00 Progress: 3%|█▎ | ETA: 0:07:59 Progress: 3%|█▍ | ETA: 0:07:58 Progress: 3%|█▍ | ETA: 0:07:57 Progress: 4%|█▌ | ETA: 0:07:56 Progress: 4%|█▋ | ETA: 0:07:55 Progress: 4%|█▋ | ETA: 0:07:55 Progress: 4%|█▊ | ETA: 0:07:54 Progress: 4%|█▉ | ETA: 0:07:53 Progress: 5%|█▉ | ETA: 0:07:52 Progress: 5%|██ | ETA: 0:07:51 Progress: 5%|██▏ | ETA: 0:07:50 Progress: 5%|██▏ | ETA: 0:07:49 Progress: 5%|██▎ | ETA: 0:07:48 Progress: 6%|██▍ | ETA: 0:07:47 Progress: 6%|██▍ | ETA: 0:07:46 Progress: 6%|██▌ | ETA: 0:07:45 Progress: 6%|██▋ | ETA: 0:07:44 Progress: 7%|██▋ | ETA: 0:07:43 Progress: 7%|██▊ | ETA: 0:07:42 Progress: 7%|██▉ | ETA: 0:07:41 Progress: 7%|██▉ | ETA: 0:07:39 Progress: 7%|███ | ETA: 0:07:37 Progress: 8%|███▏ | ETA: 0:07:36 Progress: 8%|███▎ | ETA: 0:07:34 Progress: 8%|███▎ | ETA: 0:07:33 Progress: 8%|███▍ | ETA: 0:07:31 Progress: 8%|███▌ | ETA: 0:07:30 Progress: 9%|███▌ | ETA: 0:07:29 Progress: 9%|███▋ | ETA: 0:07:28 Progress: 9%|███▊ | ETA: 0:07:27 Progress: 9%|███▊ | ETA: 0:07:26 Progress: 9%|███▉ | ETA: 0:07:26 Progress: 10%|████ | ETA: 0:07:25 Progress: 10%|████ | ETA: 0:07:24 Progress: 10%|████▏ | ETA: 0:07:23 Progress: 10%|████▎ | ETA: 0:07:23 Progress: 100%|█████████████████████████████████████████| Time: 0:00:50 [ Info: Match target IDs to reference IDs Progress: 0%| | ETA: 8:34:34 Progress: 26%|██████████▌ | ETA: 0:02:16 Progress: 52%|█████████████████████▏ | ETA: 0:00:45 Progress: 78%|███████████████████████████████▉ | ETA: 0:00:14 Progress: 100%|█████████████████████████████████████████| Time: 0:00:49 [ Info: 0 records are matched 110.574378 seconds (678.83 M allocations: 70.716 GiB, 4.63% gc time) Test Summary: | Pass Total Time conformgt_by_id | 1649 1649 5m44.4s [ Info: Match target POS to reference POS Progress: 0%| | ETA: 9:15:03 Progress: 23%|█████████▌ | ETA: 0:02:45 Progress: 48%|███████████████████▊ | ETA: 0:00:55 Progress: 73%|██████████████████████████████ | ETA: 0:00:19 Progress: 100%|█████████████████████████████████████████| Time: 0:00:53 [ Info: 833 records are matched 63.406866 seconds (348.98 M allocations: 36.367 GiB, 4.13% gc time) [ Info: Match target POS to reference POS Progress: 0%| | ETA: 9:15:30 Progress: 10%|████▏ | ETA: 0:07:35 Progress: 35%|██████████████▍ | ETA: 0:01:35 Progress: 61%|█████████████████████████▏ | ETA: 0:00:33 Progress: 89%|████████████████████████████████████▍ | ETA: 0:00:07 Progress: 100%|█████████████████████████████████████████| Time: 0:00:53 [ Info: 493 records are matched 63.371197 seconds (348.98 M allocations: 36.371 GiB, 5.07% gc time) [ Info: Match target POS to reference POS Progress: 0%| | ETA: 9:07:25 Progress: 26%|██████████▌ | ETA: 0:02:23 Progress: 52%|█████████████████████▍ | ETA: 0:00:47 Progress: 81%|█████████████████████████████████▎ | ETA: 0:00:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:52 [ Info: 0 records are matched 62.218314 seconds (348.98 M allocations: 36.368 GiB, 4.39% gc time) Test Summary: | Pass Total Time conformgt_by_pos | 2502 2502 3m10.0s 0.919764 seconds (984.78 k allocations: 84.668 MiB, 4.23% gc time, 78.85% compilation time) 0.653729 seconds (851.63 k allocations: 77.362 MiB, 1.56% gc time, 76.44% compilation time) 0.659439 seconds (857.29 k allocations: 76.744 MiB, 3.09% gc time, 76.53% compilation time) 0.435486 seconds (145.54 k allocations: 9.762 MiB, 99.96% compilation time) 0.012074 seconds (4.77 k allocations: 441.742 KiB, 95.77% compilation time) 0.010111 seconds (2.39 k allocations: 254.281 KiB, 95.59% compilation time) Test Summary: | Pass Total Time convert_gt(vcfile) | 11 11 8.0s 0.446154 seconds (564.03 k allocations: 57.247 MiB, 7.65% gc time, 57.14% compilation time) 0.157511 seconds (521.97 k allocations: 56.305 MiB, 3.15% gc time, 7.34% compilation time) Test Summary: | Pass Total Time convert_ht(vcfile) | 6 6 3.5s Test Summary: | Pass Total Time convert_ds | 5 5 0.8s 0.226652 seconds (521.50 k allocations: 54.254 MiB, 47.91% gc time, 5.75% compilation time) 0.437370 seconds (519.89 k allocations: 54.142 MiB, 67.41% gc time, 2.09% compilation time) ┌ Warning: Reached end of reader; columns 1357-1400 are set to missing values └ @ VCFTools ~/.julia/packages/VCFTools/IWkMe/src/convert.jl:72 ┌ Warning: Reached end of reader; rows 1357-1400 are set to missing values └ @ VCFTools ~/.julia/packages/VCFTools/IWkMe/src/convert.jl:176 0.101743 seconds (519.85 k allocations: 55.869 MiB, 2.25% gc time) 0.111600 seconds (519.87 k allocations: 55.870 MiB, 2.12% gc time, 10.04% compilation time) ┌ Warning: Reached end of record! Columns 1357-1400 are filled with 0.0s and are NOT haplotypes! └ @ VCFTools ~/.julia/packages/VCFTools/IWkMe/src/convert.jl:414 ┌ Warning: Reached end of record! Rows 1357-1400 are filled with 0.0s and are NOT haplotypes! └ @ VCFTools ~/.julia/packages/VCFTools/IWkMe/src/convert.jl:501 convert to transpose functions: Test Failed at /home/pkgeval/.julia/packages/VCFTools/IWkMe/test/convert_test.jl:119 Expression: all(out[1358:end, :] .== 0.0) Stacktrace: [1] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:672 [inlined] [2] macro expansion @ ~/.julia/packages/VCFTools/IWkMe/test/convert_test.jl:119 [inlined] [3] macro expansion @ /opt/julia/share/julia/stdlib/v1.10/Test/src/Test.jl:1577 [inlined] [4] top-level scope @ ~/.julia/packages/VCFTools/IWkMe/test/convert_test.jl:73 0.211103 seconds (1.56 M allocations: 107.492 MiB, 10.17% gc time) 0.205368 seconds (1.56 M allocations: 107.494 MiB, 2.69% gc time, 5.25% compilation time) ┌ Warning: Reached end of reader; columns 1357-1400 are set to missing values └ @ VCFTools ~/.julia/packages/VCFTools/IWkMe/src/convert.jl:672 ┌ Warning: Reached end of reader; rows 1357-1400 are set to missing values └ @ VCFTools ~/.julia/packages/VCFTools/IWkMe/src/convert.jl:787 Test Summary: | Pass Fail Total Time convert to transpose functions | 12 1 13 5.4s ERROR: LoadError: Some tests did not pass: 12 passed, 1 failed, 0 errored, 0 broken. in expression starting at /home/pkgeval/.julia/packages/VCFTools/IWkMe/test/convert_test.jl:72 in expression starting at /home/pkgeval/.julia/packages/VCFTools/IWkMe/test/runtests.jl:17 Testing failed after 623.31s ERROR: LoadError: Package VCFTools errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Types.jl:70 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:2034 [3] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/Operations.jl:1915 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::Base.PipeEndpoint}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:444 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::Base.PipeEndpoint, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.10/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 679.01s: package has test failures