2017-10-07 220 views
0

這是一個益智遊戲。我正在計算大型數據集的線性模型,並使用「geom_text_repel」將公式粘貼到圖上。 我跑我的腳本成功了很多次,但突然開始收到以下錯誤多次成功運行r腳本後出現「lm.fit 0(非NA)情況下的錯誤」

錯誤lm.fit(X,Y,偏移=偏移,singular.ok = singular.ok,.. ) :0(非NA)的情況下

這令人生氣,因爲我沒有改變任何東西。我已經詳細閱讀了這個問題,但還沒有找到解決方案。很多人說這是由於在數據集的每一行都有NAs,因此缺少協變量(lm called from inside dlply throws "0 (non-NA) cases" error [r]R linear regression issue : lm.fit(x, y, offset = offset, singular.ok = singular.ok, ...)Error in lm.fit(x, y, offset = offset, singular.ok = singular.ok, ...) 0 non-na cases)。我的數據集也相當齊全:

> apply(ro_aue_SO,1,function(x) sum(is.na(x))) 
40 41 42 43 44 45 46 47 48 49 50 51 52 53 
0 0 0 0 0 0 0 0 0 0 0 0 0 1 

有此數據與ZERO的NAS其他子集,我仍然得到同樣的錯誤。我試過使用na.action = na.omit,我在錯誤上使用了traceback()以獲得更多的見解,我嘗試了不同的數據輸入方法 - 沒有任何工作。由於錯誤消息剛好在腳本運行幾個小時後出現,我想知道這是否是系統問題。我在OSX 10.12.6上使用RStudio v1.0.153和r 3.4.2。

幫助!幫幫我!幫幫我!並且預先感謝你。

這是我(簡化)代碼:

holes_SO <- read.csv(file = 'data.csv', sep = ",", header = TRUE) 
holes_SO$depth <- factor(holes_SO$depth) 
ro_aue_SO <- subset(holes_SO, holes_SO$field == "ROA") 
ot_slope_SO <- subset(holes_SO, holes_SO$field == "OTS") 

#Set-up the empty equation 
lm_origin_eqn <- function(m){ 
    eq <- substitute(italic(y) == b %.% italic(x)*","~~italic(r)^2~"="~r2, 
        list(b = format(coef(m)[1], digits = 2), 
         r2 = format(summary(m)$r.squared, digits = 3))) 
    as.character(as.expression(eq));     
} 

roa_RTO <- ggplot(data = ro_aue_SO, aes(x = soc_concentration_kg_m3, y = co2_flux_µmol_c_m2_s1, color = depth, shape = depth)) + 
    geom_point(size = 3) + 
    labs(x = "SOC concentration", y = "CO2 Flux") + 
    labs(color="Depth", shape= "Depth") + 
    ggtitle(expression('RO Aue, CO'[2]*'')) + 
    geom_smooth(aes(color = depth), method=lm, se=FALSE, formula=y~x-1, fullrange = TRUE) + 
    xlim(-5,45) + 
    theme(plot.title = element_text(size = 16, hjust = 0.5, face = "bold"), 
     axis.text = element_text(size = 10), 
     axis.title = element_text(size = 12)) + 
    scale_color_discrete(drop=FALSE) + 
    scale_shape_discrete(drop=FALSE) 

#THIS IS WHERE THE ERROR OCCURS 
#fill in the linear equation 
    roa_eqns <- ro_aue_SO %>% split(.$depth) %>% 
    map(~ lm(co2_flux_µmol_c_m2_s1 ~ soc_concentration_kg_m3 - 1, data = .)) %>% 
    map(lm_origin_eqn) %>% 
    do.call(rbind, .) %>% 
    as.data.frame() %>% 
    set_names("equation") %>% 
    mutate(depth = rownames(.)) 

#paste equations onto graph 
roa_RTO_equations <- roa_RTO + geom_text_repel(data = roa_eqns, aes(x = c(0, 0, 0, 0), y = c(125, 115, 105, 95), label = equation), 
               parse = TRUE, segment.size = 0, show.legend = FALSE) 

而且數據的一個小樣本(使用生成的 「dput(holes_SO)」):

structure(list(sample_id = structure(c(1L, 2L, 3L, 4L, 10L, 11L, 
12L, 13L, 14L, 15L, 16L, 17L, 18L, 19L, 20L, 21L, 22L, 23L, 24L, 
25L, 26L, 29L, 30L, 31L, 32L, 27L, 28L, 33L, 36L, 37L, 38L, 39L, 
34L, 35L, 5L, 6L, 7L, 8L, 9L, 40L, 41L, 42L, 43L, 44L, 45L, 46L, 
47L, 48L, 49L, 50L, 51L, 52L, 53L), .Label = c("OTS1-0", "OTS1-30", 
"OTS1-60", "OTS1-90", "OTS10-0", "OTS10-20", "OTS10-30", "OTS10-60", 
"OTS10-90", "OTS2-0", "OTS3-0", "OTS3-30", "OTS3-60", "OTS3-90", 
"OTS4-0", "OTS5-0", "OTS5-30", "OTS5-60", "OTS5-90", "OTS6-0", 
"OTS7-0", "OTS7-20", "OTS7-30", "OTS7-60", "OTS7-90", "OTS8-0", 
"OTS8-120A", "OTS8-120B", "OTS8-20", "OTS8-30", "OTS8-60", "OTS8-90", 
"OTS9-0", "OTS9-120A", "OTS9-120B", "OTS9-20", "OTS9-30", "OTS9-60", 
"OTS9-90", "ROA1-0", "ROA1-30", "ROA1-60", "ROA1-90", "ROA2-0", 
"ROA2-30", "ROA3-0", "ROA3-30", "ROA3-60", "ROA3-90", "ROA4-0", 
"ROA4-30", "ROA4-60", "ROA4-90"), class = "factor"), site = structure(c(1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 
2L, 2L, 2L, 2L), .Label = c("OT", "RO"), class = "factor"), field = structure(c(1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 
1L, 1L, 1L, 1L, 1L, 1L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 2L, 
2L, 2L, 2L, 2L), .Label = c("OTS", "ROA"), class = "factor"), 
    hole_number = c(1L, 1L, 1L, 1L, 2L, 3L, 3L, 3L, 3L, 4L, 5L, 
    5L, 5L, 5L, 6L, 7L, 7L, 7L, 7L, 7L, 8L, 8L, 8L, 8L, 8L, 8L, 
    8L, 9L, 9L, 9L, 9L, 9L, 9L, 9L, 10L, 10L, 10L, 10L, 10L, 
    1L, 1L, 1L, 1L, 2L, 2L, 3L, 3L, 3L, 3L, 4L, 4L, 4L, 4L), 
    depth = c(0L, 30L, 60L, 90L, 0L, 0L, 30L, 60L, 90L, 0L, 0L, 
    30L, 60L, 90L, 0L, 0L, 20L, 30L, 60L, 90L, 0L, 20L, 30L, 
    60L, 90L, 120L, 120L, 0L, 20L, 30L, 60L, 90L, 120L, 120L, 
    0L, 20L, 30L, 60L, 90L, 0L, 30L, 60L, 90L, 0L, 30L, 0L, 30L, 
    60L, 90L, 0L, 30L, 60L, 90L), co2_flux_µmol_c_m2_s1 = c(1.710293078, 
    0.30924686, 0.36469938, 0.227477037, 1.254479063, 0.752737414, 
    2.257215969, 11.50282226, 3.566654093, 0.69900321, 1.591361818, 
    13.92149665, 22.73002129, 22.45049, 1.109443533, 7.406644295, 
    7.855618003, 17.78010488, 6.471314337, 5.315970134, 6.347455312, 
    11.54719043, 10.11479135, 11.47752926, 2.805488908, 5.222756475, 
    4.377681384, 7.173613131, 14.51864231, 9.729229653, 4.564367185, 
    10.17710718, 7.70956059, 4.382202183, 3.321182297, 3.858269154, 
    7.542932281, 19.88469738, 10.55216436, 3.572542676, 6.530127468, 
    10.78088543, 12.82422246, 3.093747739, 6.956941294, 3.316715055, 
    8.781949843, 7.684561849, 6.142716566, 2.69743231, 9.67046938, 
    7.018872033, 9.475929618), soc_concentration_kg_m3 = c(16.57, 
    1.28, 1.86, 1.63, 16.88, 16.8, 6.59, 5.7, 1.33, 15, 15.67, 
    3.8, 3.95, 3.95, 17.17, 20.5, 21.1, 4.94, 4.27, 2.43, 14.9, 
    16.52, 4.12, 4.59, 4.59, 4.24, 4.24, 15.36, 15.93, 15.93, 
    7.14, 7.14, 3.87, 3.87, 19.21, 20.24, 6.45, 5, 4.85, 40, 
    7.78, 7.78, 3.6, 41.25, 23, 36.67, 23.04, 12.4, 3.33, 35.71, 
    9.66, 12.31, NA)), .Names = c("sample_id", "site", "field", 
"hole_number", "depth", "co2_flux_µmol_c_m2_s1", "soc_concentration_kg_m3" 
), class = "data.frame", row.names = c(NA, -53L)) 

這裏是我做過什麼得到,應該仍然得到(與稍有不同的顏色/標籤),從運行上述腳本: enter image description here

+0

您是否更新了tidyverse軟件包?哈德利毫不猶豫地做出突變。 – Roland

+0

也許你有0級的'ro_aue_SO $深度'一些級別?如果是這樣,請嘗試在您的鏈條中添加「水滴」。 – Aaron

+0

@羅蘭,也許?大概。我一直在專門研究這個腳本幾天。有什麼辦法可以使我可能做的事情失去意義嗎? – jls

回答

1

是的,你有一些深度級在ROA子集中不出現,所以這些數據集完全沒有觀察結果。

> holes_SO$depth <- factor(holes_SO$depth) 
> ro_aue_SO <- subset(holes_SO, holes_SO$field == "ROA") 
> table(ro_aue_SO$depth) 

    0 20 30 60 90 120 
    4 0 4 3 3 0 
> ro_split <- split(ro_aue_SO, ro_aue_SO$depth) 
> sapply(ro_split, nrow) 
    0 20 30 60 90 120 
    4 0 4 3 3 0 
> ms <- lapply(ro_split, function(x) lm(co2_flux_mol_c_m2_s1 ~ soc_concentration_kg_m3 - 1, data = x)) 
Error in lm.fit(x, y, offset = offset, singular.ok = singular.ok, ...) (from #1) : 
    0 (non-NA) cases 

刪除那些葉子沒有錯誤。

ro_aue_SO <- subset(holes_SO, holes_SO$field == "ROA") 
ro_aue_SO <- droplevels(ro_aue_SO) 
ro_split <- split(ro_aue_SO, ro_aue_SO$depth) 
ms <- lapply(ro_split, function(x) lm(co2_flux_mol_c_m2_s1 ~ soc_concentration_kg_m3 - 1, data = x)) 
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